One update: After pressing the 32U4 reset, I have Serial port again.
Resuming, with Linino I've lost the Wifi Uploads, upgraded to 1.2 firmware didn't solve the problem, upgraded to 1.3 firmware didn't solve the problem.
Now, after 2 days with power disconnected, I can upload sketches via wifi again. BUT, now if I upload a new sketch I have to reset always the 32U4, it doesn't matter if I upload it by wifi or serial.
Strange....