With my main team I am experiencing the same stuff. Last 5 seasons always in the top 3 of the league and the CL (multiple times double winner) but this season somehow my team doesn't work well. Even when I dominate the match and have far better ratings I loose. Yesterday I had 6 players scoring from 8,2 to 9,3! Advisary best player had 7,6 and his goalie didn't make one save but he still won with 3-2.

A few seasons ago my whole MC and attacking 6 started scoring 5-6's only after the first half. These were players that were in all top 5 list of goals/assists/best rated players. I tried switching people around, tried different formations, changed arrows on persons, nothing helped. Even with 6 losses and 3 ties in the second half I still won the league. That far ahead I was after the first half :P

To make a long story short, Seasons like this happen Misiek. These are seasons where you can try what you want but you will always at the short end of the stick. Just try stuff and hopefully you will find the form that suits your players.