Nautilus connects to FreshBooks to add warehouse inventory data to your client invoicing. Product costs flow into invoices as they're prepared, and stock movements stay aligned with the expense categories you already use in FreshBooks.
Inventory data, where you need it.
Three things the FreshBooks integration does well, that you'd otherwise be doing by hand.
COGS on every invoice
When you invoice a client for a product, the corresponding cost of goods sold posts to FreshBooks in the same transaction. No reconciliation between two systems at month-end.
Expense categorization
Warehouse expenses (receiving, transfers, shrinkage) map to FreshBooks categories during setup. Your books stay clean without manual category assignment per transaction.
Project-level inventory
Attach inventory consumption to specific FreshBooks projects. Useful for service-and-product hybrids where a client engagement uses both billable hours and warehouse stock.
Bidirectional sync. No manual entry.
Data moves between Nautilus and FreshBooks in both directions, near-real-time.
- Inventory consumption
- COGS values
- Receipt costs
- Project allocations
- Invoice line items
- Client records
- Expense categories
- Project IDs
Four steps to live.
Under 10 minutes for most teams. The full health check takes longer but doesn't block sync.
Connect
Authenticate with one click. Nautilus uses OAuth — no API keys to copy, no credentials to store.
Map
Match your products, locations, and accounts. Nautilus auto-maps by SKU where possible.
Sync
Enable bidirectional sync. Changes in either system reflect in the other within 30 seconds.
Verify
Run the sync health check. Nautilus flags any mismatches before they become problems.
What the integration does, in numbers.
FreshBooks questions, answered.
Is this a good fit for pure service businesses with little inventory?
Probably not. FreshBooks itself works well for service-only businesses without Nautilus. The integration becomes worth setting up when at least 20-30% of your invoices include physical products you ship from a warehouse.
How does this handle the FreshBooks Lite plan?
FreshBooks Lite is supported, but with one tradeoff: Lite's API limits prevent real-time inventory sync. Adjustments batch and post every 15 minutes instead of on each event. Upgrade to Plus or higher for real-time sync.
Can I track inventory across multiple FreshBooks accounts?
Yes. Most accounting firms managing multiple clients install one Nautilus warehouse per FreshBooks account. Bookkeepers can switch between them through Nautilus admin without re-authenticating each time.
What if I don't want every warehouse event hitting FreshBooks?
Configure event filters during setup. Most customers exclude internal transfers (which don't affect COGS), cycle count adjustments under a threshold, and zero-cost product moves. Filters are per-event-type, not per-product.
See Nautilus + FreshBooks running on real data.
30-minute walkthrough with a Nautilus engineer. We'll connect a sandbox of your FreshBooks account and show the sync live.