2. Stripe Billing

Stripe Billing is one of the most common platforms for SaaS companies because it’s fast to implement, developer-friendly, and tightly integrated with Stripe payments. For a single-entity team charging straightforward subscriptions or light usage, Stripe delivers a smooth experience with minimal setup. 

But once a company adds multiple entities or expands into new regions, Stripe’s limitations become visible. Because actually it was not built with multi-entity structures in mind, meaning each entity typically needs its own Stripe account. This creates a data depot, which leads to manual reconciliation and results in a lack of a consolidated view of revenue across the business.

Key features

• API-driven billing workflows. You can create plans, track usage, and generate invoices directly through well-structured APIs that are easy to integrate into your product.

• Quick implementation path built-in checkout, customer portals, and lightweight plan setup help you go live fast without heavy upfront configuration.

• Metered billing support. You can report usage via API to support usage-based pricing, though this is better suited for batch updates than real-time event streaming.

• Straightforward subscription controls. You get core tools for recurring billing, plan changes, proration, and basic reporting, enough to manage standard SaaS workflows.

Pros:

• Stripe Billing is easy to set up, making it a strong choice for early teams that need to launch subscriptions quickly without heavy configuration.

• Clear APIs and strong documentation allow engineering teams to build custom billing workflows with minimal friction.

• Billing integrates natively with Stripe Payments, providing teams with automatic access to global payment methods and card updater capabilities.

Cons:

• Each entity requires its own Stripe account, creating operational silos and preventing consolidated reporting or shared customer data.

• More complex needs, such as multi-jurisdiction tax logic, GAAP/IFRS revenue recognition, or audit-ready workflows, require manual work or additional tools.

• As billing needs grow, teams often rely on spreadsheets or custom scripts for CPQ, usage tracking, and reporting, since Stripe doesn’t natively support more advanced SaaS workflows.

Pricing

Stripe Billing pricing is not disclosed publicly; you can check their website.

Best for

• Best suited for early-stage SaaS teams operating with one or two legal entities and simple pricing structures.

• Ideal when speed to market matters most, and you need to launch subscriptions quickly without complex multi-entity requirements.

3. Zuora

Zuora is one of the most established enterprise subscription billing platforms, built for large organizations with highly complex billing needs across multiple business units, geographies, and product lines.

Zuora supports global operations with multi-entity setups, multi-currency and multi-language billing, advanced pricing catalogs, usage rating, custom workflows, and enterprise-grade tax and revenue modules.

While Zuora can handle virtually any billing scenario, the tradeoff is complexity. Implementations are lengthy, configuration requires deep expertise, and most teams rely on certified consultants or internal specialists to manage ongoing changes. It’s powerful, but very much an enterprise tool.

Key features

• Supports sophisticated pricing models, large product catalogs, and highly configurable billing rules.

• Can manage multiple entities or business units, each with its own currency, tax logic, and workflows, with the ability to consolidate at scale.

• Offers configurable workflows, event triggers, and custom billing logic for intricate enterprise processes.

• Separate module for ASC 606/IFRS 15 revenue recognition, multi-element arrangements, and audit-ready schedules.

• Multi-currency, multi-language, global tax handling, and support for diverse regulatory environments.

Pros:

• Built to support large, global organizations with sophisticated billing and compliance requirements.

• Strong functionality for managing multiple business units, geographies, and reporting layers.

• Flexible workflows, advanced pricing configurations, and a modular product suite allow for detailed tailoring.

Cons:

• Deployments often take months and typically require specialized Zuora consultants or trained internal teams.

• Introducing new products or pricing changes requires careful configuration, testing, and governance, which slows experimentation.

• Pricing typically starts around $50,000 per year, often scaling much higher for enterprise deployments.

Pricing

Zuora does not publicly list pricing; contact their sales team for more information.

Best for

• Large enterprises with complex billing operations, multiple business units, and strict internal controls.

• Organizations with extensive RevOps and finance resources that can support heavy implementation and ongoing administration.

4. Maxio

Maxio is a finance-led billing and revenue platform built for teams that care first about accounting correctness. It brings subscriptions, revenue recognition, and financial reporting into one system, with a heavy focus on GAAP/IFRS compliance and audit readiness.

At its core, Maxio is designed for CFOs and RevOps teams who need clean books and reliable SaaS metrics. You get built-in visibility into MRR, churn, and cohorts, plus tooling for deferred revenue and recognition schedules, useful when finance needs answers fast for board decks or audits.

Where Maxio starts to show limits is in flexibility. It works well for predictable subscription businesses, but usage-heavy products or fast-changing pricing models tend to run into friction. Setup is also more involved than newer product-led billing tools.

Key features

• Handles ASC 606 and IFRS 15, including allocating revenue across multiple deliverables and recognizing annual contracts month by month.

• Keeps deferred and recognized revenue in sync as invoices go out, so financial statements stay aligned without manual adjustments.

• Provides dashboards for MRR, ARR, churn, cohorts, LTV, and other core metrics finance teams rely on for reviews and forecasting.

• Supports multiple entities and consolidated reporting on upper tiers, with FX updates baked into billing.

• Connects with ERPs like NetSuite and QuickBooks, common CRMs, payment gateways, and Maxio’s own payments stack.

Pros

• Strong GAAP/IFRS support, detailed audit trails, and dependable revenue reporting — helpful for fundraising, audits, or IPO prep.

• Covers revenue, deferred revenue, AR aging, and SaaS KPIs in one place, reducing reliance on spreadsheets or external BI.

• Supports common workflows like annual contracts with monthly recognition, renewals, co-terming, and seat-based pricing.

Cons

• Expect months, not weeks. Product mapping, revenue rules, and accounting policies take real upfront effort, and many teams bring in consultants.

• Because everything is finance-driven, adding new pricing models or adjusting billing logic often requires support involvement and careful reconfiguration.

• Accountants feel at home. Product and engineering teams usually don’t.

Pricing

Maxio offers tiered plans that reward growth, starting around $599/month for standard billing and rising to custom enterprise pricing for high volume and advanced revenue operations.

Best for

• SaaS companies with dedicated finance or RevOps teams that need strict compliance, audit-ready reporting, and structured revenue processes.

• Businesses with stable pricing (annual contracts, seat tiers) that prioritize accounting accuracy over rapid pricing experimentation.

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5. Chargebee

Chargebee is a subscription billing platform that many mid-market SaaS teams start with once recurring revenue becomes real. It covers the basics well: plan management, trials, proration, dunning, and automated invoicing. It also connects with most of the tools finance and RevOps already use.

Where things get tricky is multi-entity.

Chargebee technically supports multiple entities, but each one lives in its own “site.” That means separate instances, separate configs, and separate data. If you’re running one or two entities, this is manageable. Once you expand globally, it turns into operational overhead fast, especially when finance needs consolidated reporting.

Key features

• Let's price in different currencies and customize invoices by region.

• Supports trials, upgrades, downgrades, proration, pauses, add-ons, and one-time charges with consistent billing logic.

• Works with tools like Salesforce, HubSpot, QuickBooks, NetSuite, Stripe, Braintree, PayPal, and Avalara.

• Offers ASC 606 / IFRS 15 schedules through a paid module.

Pros

• Handles the day-to-day mechanics of SaaS billing — plans, changes, proration, dunning without surprises.

• Built-in currency and localization features help if you sell across regions (even though entities stay siloed).

• Finance and support teams can manage customers and plans from the UI without pulling in engineering.

Cons

• Multi-entity means multiple Chargebee sites. There’s no native consolidated reporting or shared customer view.

• Moving customers, syncing configurations, or handling cross-entity workflows requires manual work.

• Managing multiple gateways, tax rules, and sites adds setup overhead. Many teams end up needing consultants.

Best for

• Mid-market SaaS companies with standard subscription pricing and predictable billing flows.

• Teams easing into multi-entity operations who are okay with managing one or two separate Chargebee instances.

Pricing

Chargebee pricing is tiered based on revenue and feature access, with enterprise plans negotiated through sales.

How to choose the right multi-entity billing software

Most platforms will tell you that they support multi-entity billing. But the real question is how deep that support actually goes once your structure gets complicated. Here is what to actually evaluate before you commit.

Does it handle usage attribution at the entity level? 

If your revenue is tied to real-time technical metrics like tokens, API calls, or compute hours, you need metering that maps usage to the right entity at the point of ingestion, not corrected after the fact. Ask the vendor directly: where does attribution happen, and what does the reconciliation process look like when it goes wrong?

Can it support your pricing model without custom engineering? 

Multi-entity companies rarely run a single pricing model across all entities. If introducing a credit system or a usage tier for one entity requires an engineering sprint, that is a sign that the platform was not built for this level of complexity.

How does it handle consolidated reporting? 

Your CFO needs a single view of revenue across entities, in one base currency, without manual FX adjustments. If the platform cannot produce board-ready consolidated metrics without exporting to a spreadsheet, it will become a bottleneck as you scale.

What does the account hierarchy actually look like? 

Parent-child account structures should let you centralize invoicing at the parent level while preserving usage visibility at the team or subsidiary level. If this is a workaround rather than a native feature, you will feel it operationally.

Is the pricing model itself sustainable? 

Percentage-of-revenue billing looks manageable early. At $2M ARR and beyond, it becomes one of your largest platform costs. Evaluate the total cost of ownership across your projected growth, not just your current ARR.

What are the compliance and audit capabilities? 

Operating across entities means operating across regulatory environments. SOC II compliance, full contract version history, and audit-ready invoicing are not nice-to-haves when you are closing enterprise deals or preparing for a fundraise.

Why is Flexprice the perfect multi-entity billing software for you?

Most billing platforms were built for one entity, one currency, one pricing model. Multi-entity support got added later in their system, and you can feel it in the workarounds.

FlexPrice was built differently.

The core architecture assumes complexity from the start. Parent-child account hierarchies, real-time usage attribution, credit pooling across teams, and consolidated invoicing are not just add-ons. They are how the platform works by default.

For AI-native companies specifically, this matters more than it sounds. Your revenue is tied directly to technical metrics that move in real time. A token consumed in your global entity needs to hit the right wallet, the right invoice, and the right revenue line without a manual correction cycle at month-end. Flexprice handles that at the metering layer, before it becomes a finance problem.

The open-source foundation means you are never locked into a vendor's interpretation of how multi-entity billing should work. You can extend it, audit it, and adapt it as your entity structure grows, without waiting on a roadmap or negotiating a custom contract.

And unlike percentage-of-revenue platforms that quietly become one of your highest costs as you scale, Flexprice's pricing does not penalize you for growing.

If you are at the point where your current billing setup is holding back how fast you can expand into new markets, launch new pricing models, or give your finance team the consolidated visibility they need, Flexprice is especially built for that stage.

Wrapping up

Multi-entity billing is one of those problems that looks manageable until it isn't. You add a second entity, then a third market, then an enterprise customer who wants centralized invoicing. 

This is what causes team-level usage breakdowns, and suddenly, your billing setup becomes the main hurdle that slows everything down.

All platforms mentioned on this list solve parts of that problem. The right choice depends on where you are today and where your structure is heading in the next 12 to 18 months.

But if you are an AI-native or usage-first SaaS company that needs accurate usage attribution across entities, pricing flexibility without engineering dependency, and consolidated reporting your finance team can actually trust, Flexprice, which is worth a serious look.

It is open source, built for the complexity that comes with real growth, and priced in a way that does not work against you as your revenue scales.

If you are still figuring out which direction to go, start with the evaluation criteria in this guide. The right platform is the one that handles your current structure cleanly and does not become a ceiling when your next entity goes live.