Do you think WAV sounds better than FLAC or other lossless compressed files (both ripped with EAC)?
I don't hear a difference, so I converted all of my WAV files to FLAC.
Some people say they do hear a difference. Under ideal situations there should be no difference, but decoding FLAC does consume more CPU than simply reading the WAV file, so there could be some small timing differences introduced. Depending on your output devices (e.g. SqueezeBox, USB DAC, USB to S/PDIF converter, etc.) these timing issues may result in jitter.
Of course, if your system is I/O bound rather than CPU bound, the smaller size of FLAC files may actually help with preventing the timing issues.
So, it's impossible to give you an absolute answer. There should be no difference, but depending on your system FLAC may sound better or worse than WAV. The only way to find out for certain is to try.
-Rob