SyncTools vs MyWorks: Full Comparison 2026
SyncTools is the better MyWorks alternative if you sell on Amazon or eBay, need Linnworks integration, or want an AI accounting agent and free plan. MyWorks wins for Shopify + WooCommerce sellers on QuickBooks Desktop who want a focused, budget-friendly connector. SyncTools adds multi-channel coverage, cloud ERP support, and auto-reconciliation MyWorks lacks.
SyncTools vs MyWorks: Side-by-Side Comparison
| Feature | SyncTools ✓ | MyWorks |
|---|---|---|
| Entry price | Free (200 orders/mo) | $19/month |
| Paid plans from | $19/month | $19/month |
| Free plan | ✓ | ✗ |
| Shopify | ✓ | ✓ |
| WooCommerce | ✓ | ✓ |
| Amazon | ✓ | ✗ |
| eBay | ✓ | ✗ |
| Linnworks | ✓ | ✗ |
| TikTok Shop | ✓ | ✗ |
| QuickBooks Online | ✓ | ✓ |
| QuickBooks Desktop | ✗ | ✓ |
| Xero | ✓ | ✓ |
| NetSuite | ✓ | ✗ |
| Sage | ✓ | ✗ |
| Zoho Books | ✓ | ✗ |
| Microsoft Dynamics 365 | ✓ | ✗ |
| Summarized payout sync | ✓ | ✓ |
| Individual transaction sync | ✓ | ✓ |
| AI accounting agent | ✓ | ✗ |
| Auto-reconciliation | ✓ | Partial |
| Partner dashboard | ✓ | ✗ |
| Historical backfill | 24 months | Limited |
| SOC 2 certified | ✓ | Unclear |
| Rating | 4.9/5 (2,000+ reviews) | 4.5/5 |
| Onboarding support | Guided (paid plans) | Self-serve |
Platform Coverage: Shopify, WooCommerce, and Beyond
MyWorks is purpose-built for Shopify and WooCommerce accounting sync. It connects both storefronts to QuickBooks Online, QuickBooks Desktop, and Xero — and does that core workflow well. For merchants who sell exclusively on Shopify or WooCommerce with no marketplace expansion plans, MyWorks is a focused, budget-friendly option.
The hard stop: MyWorks does not support Amazon, eBay, or Linnworks. Multi-channel sellers who added Amazon or operate through Linnworks for warehouse management must use a separate tool — or switch to a platform that covers everything from one account.
SyncTools covers Shopify and WooCommerce with the same accounting sync depth, and adds Amazon, eBay, Linnworks, and TikTok Shop. For UK/EU operations using Linnworks for multi-warehouse or 3PL workflows, SyncTools is the only choice between the two tools.
On the accounting side, MyWorks connects to QuickBooks Online, QuickBooks Desktop, and Xero. SyncTools adds NetSuite, Sage, Zoho Books, and Microsoft Dynamics 365 — covering mid-market and enterprise accounting systems that MyWorks does not.
Pricing: SyncTools vs MyWorks
SyncTools offers a genuine free plan (up to 200 orders/month, no time limit) and paid plans from $19/month. MyWorks has no free tier — its entry price is $19/month and scales with order volume.
At comparable paid volume tiers, the two tools are similarly priced. The difference is what you get for that price: SyncTools includes Amazon, eBay, Linnworks, auto-reconciliation, and an AI accounting agent in all plans with no feature paywalls. MyWorks covers Shopify and WooCommerce only — adding Amazon requires a separate tool and a second monthly bill.
SyncTools pricing is volume-based only — you pay for order volume, not channel count. Adding a new sales channel (e.g., adding Amazon to an existing Shopify setup) does not increase your monthly bill.
For accounting firms managing multiple clients, SyncTools offers a dedicated Partner Program with volume pricing and a multi-client dashboard. MyWorks does not include a partner-tier pricing model or dedicated partner dashboard.
QuickBooks Desktop and Accounting System Coverage
QuickBooks Desktop is MyWorks' clearest advantage. MyWorks supports QuickBooks Desktop (QBD) alongside QuickBooks Online and Xero — a genuine strength for merchants and accountants who have not yet migrated to cloud accounting. SyncTools does not support QuickBooks Desktop.
If your books live in QuickBooks Desktop and you sell on Shopify or WooCommerce only, MyWorks is a practical, well-established choice. Many merchants in this category have used MyWorks for years with reliable results.
SyncTools is built for cloud accounting: QuickBooks Online, Xero, NetSuite, Sage, Zoho Books, and Microsoft Dynamics 365. If you are on QuickBooks Online or Xero — or planning to migrate from Desktop — SyncTools covers the same Shopify and WooCommerce workflows MyWorks handles, plus additional channels and accounting systems.
For merchants using NetSuite, Sage, or Zoho Books, MyWorks is not an option. SyncTools connects eCommerce channels directly to these systems — a gap MyWorks does not fill.
AI Agent, Auto-Reconciliation, and Partner Tools
Both tools sync eCommerce transactions to accounting software with summarized and individual transaction options. MyWorks handles fee mapping, tax scenarios, and order-level detail for Shopify and WooCommerce reliably — its core sync workflow is proven.
AI accounting agent is where the tools diverge most sharply. SyncTools includes an AI-powered natural language agent that lets you ask questions like "What were my net Shopify fees in Q1?" or "Which WooCommerce orders reconciled against last week's payout?" — and get instant answers. MyWorks offers no equivalent feature.
Auto-reconciliation in SyncTools matches payout deposits to transaction batches automatically, flagging discrepancies without manual review. MyWorks handles basic sync but does not prominently feature automated payout reconciliation across channels.
For accounting firms, SyncTools offers a dedicated partner dashboard for managing multiple client accounts from one interface. MyWorks does not include a comparable multi-client partner program — firms managing several Shopify or WooCommerce clients must log into each account separately.
Who Should Choose SyncTools vs MyWorks?
Choose SyncTools if you…
- Sell on Amazon, eBay, or Linnworks (MyWorks doesn't support them)
- Use NetSuite, Sage, Zoho Books, or Dynamics 365
- Want an AI accounting agent
- Need auto-reconciliation across channels
- Are an accounting firm needing a partner dashboard
- Want a free plan or lower entry cost
- Sell on 3+ channels from one account
- Use QuickBooks Online or Xero (cloud accounting)
Consider MyWorks if you…
- Use QuickBooks Desktop (SyncTools doesn't support QBD)
- Sell only on Shopify or WooCommerce
- Want a focused, budget-friendly connector
- Don't need Amazon, eBay, or Linnworks
- Are comfortable with QBO/Xero only (no NetSuite or Sage)
- Don't need an AI accounting agent or partner dashboard
SyncTools serves sellers across eCommerce & retail, health & wellness, food & beverage, beauty & cosmetics, and dropshipping & 3PL — wherever multi-channel accounting complexity is highest.
Frequently Asked Questions
Is MyWorks better than SyncTools?
It depends on your setup. MyWorks is a solid choice for Shopify or WooCommerce sellers who use QuickBooks Desktop and want a focused, budget-friendly connector. SyncTools is the better fit when you also sell on Amazon or eBay, need Linnworks integration, use NetSuite or Sage, or want an AI accounting agent and free plan.
Which is cheaper - SyncTools or MyWorks?
SyncTools is cheaper to start: it offers a free plan (up to 200 orders/month) while MyWorks starts at $19/month with no free tier. At comparable paid volume tiers, pricing is similar — but SyncTools includes Amazon, Linnworks, auto-reconciliation, and an AI accounting agent in all plans with no feature paywalls.
Does MyWorks support Amazon?
No. MyWorks focuses on Shopify and WooCommerce to QuickBooks and Xero. It does not offer Amazon marketplace accounting integration. If you sell on Amazon alongside Shopify or WooCommerce, SyncTools handles all channels from one account.
Does SyncTools support QuickBooks Desktop like MyWorks?
No. MyWorks supports QuickBooks Desktop (QBD) alongside QuickBooks Online and Xero — a genuine strength for merchants still on desktop accounting. SyncTools supports QuickBooks Online, Xero, NetSuite, Sage, Zoho Books, and Microsoft Dynamics 365, but not QuickBooks Desktop.
Does SyncTools have an AI accounting agent?
Yes. SyncTools includes an AI-powered accounting agent that answers natural language questions about your eCommerce financial data — reconciliation status, fee breakdowns, revenue by channel, and more. MyWorks does not offer an AI accounting agent.
Can I switch from MyWorks to SyncTools without losing data?
Yes, if you use cloud accounting. SyncTools supports historical data backfill of up to 24 months for QuickBooks Online, Xero, NetSuite, Sage, and Zoho Books. If you rely on QuickBooks Desktop via MyWorks, you would need to migrate to QuickBooks Online first before switching to SyncTools.
Ready to Switch from MyWorks?
Join 2,000+ merchants using SyncTools. Free plan available - no credit card required. Add Amazon, Linnworks, and AI-powered accounting to your Shopify or WooCommerce workflow. Use our ROI calculator to see how much you could save.
4.9/5 rating · 2,000+ clients · SOC 2 certified