Bigasoft Audio Converter can convert FLAC, APE to Apple Lossless ALAC, WAV, 24bit WAV, MP3, 320kbps MP3 while preserving ID3 tags. It is also capable of splitting FLAC, APE based the CUE files. You may visit the detailed guide to convert APE/FLAC to ALAC here:
I just convert FLAC to Apple LossLess M4A, WAV with Faasoft Audio Converter to import FLAC to iTunes.
I use iDealshare VideoGo to batch convert FLAC to iTunes ALAC Apple Lossless, it supports directly drag the FLAC forlder and then convert them at a time.And it has both Mac version and Windows and also can convert FLAC to MP3, WAV, AIFF, AAC, WMA, and etc.