The problem is many encoders add vorbis and ID3 cause problems.
Quote:
* Add ID3 tag: Unchecked.
It is very important that you do not check this option. The tags will be added by the use of a command line (which is different for FLAC, mp3 and Ogg Vorbis, see EAC Lossy Setup Guide for the latter). Adding anything but Vorbis comments (FLAC Tags) to FLAC and Ogg Vorbis files will make them unplayable by some players. (To be sure, the files may be OK even if you have checked this option, provided that you have not checked some options under 4d. ID3 Tag as well. Still, you need to open the files in a hex editor in order to check if they are really free from ID3 headers. It is much better to simply keep this checkbox unchecked.)
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EAC Setup Guide
This is the official ripping guide for any site that has proper FLAC
As for the Foobar2000 it's personal experience after having edited the tags on 100s of badly tagged rips in Tag&Rename. As well as trying it out myself by checking that option. As for exactly what players can't play or display ID3 I don't know or care. I just make sure to follow that guide except for naming scheme.
I do everything Tracknumber - Title or Tracknumber - Artist - Title for various artists CD's. Also I name the folder Artist - Album (Year) [FLAC] {Other info e.g. catalog number} as per Pedro's and E naming scheme rules. I can't link to that.
I would find some more extensive discussion on it if I wasn't going out. But I'm sure you would find something about it on Hydrogenaudio.
iTunes can play FLAC, but I have no idea if it's by using some plugin or if it's only in Windows or anything like that.
Edit: What better place to find answers than the actual FLAC FAQ:
Quote:
What kinds of tags does FLAC support?
FLAC has it's own native tagging system which is identical to that of Vorbis. They are called alternately "FLAC tags" and "Vorbis comments". It is the only tagging system required and guaranteed to be supported by FLAC implementations.
Out of convenience, the reference decoder knows how to skip ID3 tags so that they don't interfere with decoding. But you should not expect any tags beside FLAC tags to be supported in applications; some implementations may not even be able to decode a FLAC file with ID3 tags.
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http://flac.sourceforge.net/faq.html#general__tagging