Ecommerce accounting splits into two jobs: a general ledger, where your books live, and a connector, the piece that pulls marketplace payouts, fees, refunds, and sales tax into that ledger cleanly. Most stores need one of each. The eight tools below are the ones that come up most often for Shopify, Amazon, and multichannel sellers, sorted into ledgers and connectors so you can see what actually competes with what.
All figures are list prices pulled from each vendor as of August 2026. Connector pricing scales with order or transaction volume, so we show the entry tier and the pricing lever, not a single number. Verify your own tier against your monthly order count before you commit.
General ledgers: where your books live
| Tool | Entry price / mo | Top published tier / mo | Pricing lever | Free tier | Best for |
|---|---|---|---|---|---|
| Wave | $0 | ~$199 (with add-ons) | Add-ons (payroll, payments) | Yes (core accounting) | Micro sellers, side stores |
| Zoho Books | $0 (under $50K rev) | ~$50 | Feature tier + user count | Yes (under $50K annual revenue) | Zoho-suite stores, tight budgets |
| FreshBooks | $11 (Lite) | $55 (Premium) | Client/feature tier | No (30-day trial) | Service + product hybrids, invoicing-heavy |
| Xero | $15 (Early) | $60-$70 (Premium) | Invoice volume + feature tier | No (trial) | Multichannel, accountant collaboration |
| QuickBooks Online | $38 (Simple Start) | $115 (Plus) | Feature tier + user count | No (trial) | US brands, widest app ecosystem |
QuickBooks Online list prices reflect Intuit’s scheduled Aug 1, 2026 increase; mid and top tiers rise on that date.
Ecommerce connectors: marketplace payout to ledger
| Tool | Entry price / mo | Pricing lever | Platforms | Setup path | Notable |
|---|---|---|---|---|---|
| Link My Books | $21 | Order volume | Amazon, Shopify, eBay, Etsy, WooCommerce | Self-serve, fast | Built-in tax rate wizard; typically cheapest per order |
| A2X | $29 / channel | Order volume (12 tiers to $1,039) | Amazon, Shopify, eBay, Walmart, Etsy | Often accountant-led | Settlement-to-GL accuracy; priced per sales channel |
| Synder | $52 (annual) / $65 (monthly) | Transaction volume | Broad (Shopify, Amazon, Stripe, PayPal, many) | Self-serve | Broadest integrations; Receive Payments add-on +$30/mo |
Reading the connector row: A2X charges per sales channel, so a two-channel seller pays roughly double the single-channel figure. Link My Books and Synder price on total volume across channels, not per channel. That distinction is the single biggest cost driver most sellers miss.
How we compiled this
- Scope: eight tools that recur in Shopify, Amazon, and multichannel accounting stacks, split into ledgers and connectors.
- Data collected: list pricing, entry and top published tiers, the pricing lever, free-tier availability, platform coverage, and setup path.
- Source: each vendor’s published pricing page and plan documentation, captured August 2026.
- We did not assign a single subjective score. The value here is the factual spec grid.
- Limitation: connector pricing depends on order or transaction volume, so entry price is a floor, not your likely bill.
Frequently asked questions
- What is the cheapest ecommerce accounting tool?
- Wave and Zoho Books both have genuine free tiers for low-revenue stores. Among paid connectors, Link My Books starts lowest at $21/mo.
- Do I need both a connector and a ledger?
- Most multichannel sellers need both: the ledger holds the books, and the connector translates messy marketplace payouts (fees, refunds, tax) into clean entries.
- How does A2X per-channel pricing work?
- A2X bills per sales channel, so selling on both Amazon and Shopify roughly doubles the entry cost. Volume-priced tools like Link My Books do not.
