on which period do you see this difference? (day, week, month, year)
Is there any difference on the number of “transaction” (basket submission)?
Do you track all visits (don’t you disable tracking on DNT parameter or on cookie decline)?
Now that I think about it, that could be it! Of course, if a user has a cookie blocker or refuses to accept the cookies, the data will be missing in Matomo (correct?)
Some examples I just looked up. I am not comparing the actual amount of money yet, just the amount of orders.
This week till now
Matomo: 3 orders
WooCommerce: 3 orders