As part of the newest generation of Yesfans, I have only actually had access to the most recent remasters. Some people say vinyl is better quality; after all a digital recording is only a sampled copy of the original so it's hard to see how the quality could improve. Still, the arguments differ...
As for the bonus tracks, they're not that great, but theres no harm in them being there. Most are poorly mixed with no overdubs, but it gives you a good taste of how the band sound "raw". The highlights for me would be America (obviously), Siberia, and Squire's Amazing Grace.