Dunno, what to say about the formats. Many CDDA + many data tracks, like
https://redump.info/disc/23664/ -- to optimize the seeking (like those dummy files on PS2 and DC discs to move the data to the edge of the disc). 2 data tracks --
https://redump.info/disc/18514/ -- last track is a backup in case the disc gets scratched or something. Sometimes only 1 data track --
https://redump.info/disc/16749/ (goes last),
https://redump.info/disc/9957/ (goes second). Sometimes no audio tracks at all, only 1 data track -
https://redump.info/disc/3039/. Game Express CD games have a completely different format (regular ISO9660, in fact - 1st track data with all the files visible, the rest are CDDA tracks). Latter homebrew\unlicensed Super CD-ROM² titles have interesting formats, but I don't have any of these physically, so can't say anything atm (they are close to Game Express CDs, afaik).
As for dumping nuances - CD-ROM² titles (green/blue side stripe) often have sub/TOC tracks addresses desyncs (point to different nearby sectors) --
https://redump.info/disc/2410/, so the subdump .sub is a must. Some discs contain empty sectors in data part -
https://redump.info/disc/32499/. Pregaps are usually ECMA-130\yellowbook-compliant (at least 75 sectors in the same mode as the previous track, at least 150 sectors in the same mode as the next track, so the gaps between audio and data tracks are 3 secs long, 1st sec audio, 2 secs data), but sometimes are not -
https://redump.info/disc/31791/.
Dunno about "CD-ROM²" name story, maybe, they wanted to point that it's so amazing that it's "squared" times better than usual CDs, lol.