Best for service agencies4.5From $19/moFreshBooks
Invoicing, time tracking, and client billing in one package. Strong for agencies that bill by project or retainer and need a clear client portal.
Best Invoicing Software for Agencies (2026)
Compare invoicing software built for agencies: client billing, retainers, proposals and contracts, recurring invoices, and project workflows.
Agencies need invoicing software that supports client billing, retainer agreements, and project-based work. Our picks below combine invoicing with proposals, contracts, and recurring billing so you can manage client work and get paid on time.
Updated for 2026
Top picks for this use case
Our top invoicing picks for agencies.
Best for service agencies4.5From $19/mo
Best for client workflows4.4From QuoteHoneyBook
Proposals, contracts, and invoicing in one workflow. Ideal for creative and service agencies that run on client projects and need a full client journey.
Best for broader admin and reporting4.6From $30/moQuickBooks
Invoicing plus full accounting and reporting. Fits agencies that need deeper books, multi-user access, and accountant-friendly reporting.
Best for smaller creative teams4.3From QuoteBonsai
Proposals, contracts, and invoicing in one place. Good for smaller agencies and creative teams that want a simple all-in-one client workflow.
Compare options
Side-by-side at a glance.
| Software | Best for | Starting price | Standout feature | Review |
|---|---|---|---|---|
| FreshBooks | Service agencies | $19/mo | Invoicing, time tracking, client portal | Read review |
| HoneyBook | Client workflows | Quote | Proposals, contracts, invoicing | Read review |
| QuickBooks | Admin and reporting | $30/mo | Accounting + invoicing | Read review |
| Bonsai | Smaller creative teams | Quote | Proposals, contracts, invoicing | Read review |
Editorial guidance for this audience
What to look for when you're choosing invoicing software as an agency.
Client billing and retainers
Look for software that supports recurring invoices for retainers, clear client portals, and payment tracking. FreshBooks and HoneyBook both excel here; QuickBooks adds full accounting for agencies that need it.
Proposals and contracts
Agencies often need to send proposals and contracts before invoicing. HoneyBook and Bonsai are built for this workflow; FreshBooks offers estimates that convert to invoices. Choose based on how much you rely on formal proposals and e-signatures.
Project workflows
If you bill by project or need to track time and expenses by client, look for project-level invoicing and time tracking. FreshBooks and QuickBooks support this; HoneyBook and Bonsai focus on the client-facing pipeline.
Why these picks work for this use case
Why we chose these tools for agencies.
FreshBooks
FreshBooks is a strong default for service agencies: invoicing, time tracking, and client billing in one place. It’s easy to use and scales with your client count.
HoneyBook
HoneyBook is built for client-heavy workflows: proposals, contracts, and invoicing in one pipeline. Ideal for creative and service agencies that run on projects.
QuickBooks
QuickBooks fits agencies that need full accounting and reporting alongside invoicing. Multi-user and accountant-friendly; best when you already use or plan to use QuickBooks for books.
Bonsai
Bonsai combines proposals, contracts, and invoicing for smaller teams. It’s a good fit for creative agencies that want a simple all-in-one without enterprise complexity.
For more options across all use cases, see our best invoicing software roundup. To compare platforms side-by-side, see our invoicing software comparisons.
FAQs
Quick answers for this use case.