I have used Transferwise 3 times to move funds to MTGOX: GBP to EUR SEPA. Both Transferwise & MTGOX are totally aware and happy with each other.
I wonder if it matters if your Mt. Gox account is verified or not. So just to clarify you are moving EUR via SEPA to Mt. Gox (bank in Poland). And your account is verified status (AML Level 1)?
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https://support.mtgox.com/entries/20919111-AML-Account-Statuses