^^ FWIW, I took the same files, transcoded them to FLAC using XLD, loaded them onto my 'New Music' flash drive, Updated the flash drive and loaded them into Media Player using the Default View:

...as you can see, they now load correctly. Also, I can load the original ALAC files, in the correct order, using MPaD via MPD, without any track ordering issues. There does seems to be something peculiar with ALAC and MM.
Version info: S2.17 2015-08-13