But at the beginning they have great abilities which help you in the early game. It is a trade off of easy early game versus gimped late game. Immunity to poison, disease resistance, water breathing, higher jumping, night eye, and being a beast! all help in the early game when you have less skills and a small amount of magica.
Great abilities? They're not so great. Thanks to attributes, any race could be just as powerful as any race, except for special perks such as 50% resistance to magick, berserk, and a few others that permanently outperform other races. Skill bonuses svck. Now a faster skill progression would be awesome. Bosmers increasing their marksman faster, orcs increase their heavy armor faster, etc. That would be worthwhile imo.. You know, I might make a thread on this.
Well then, if you want that added challenge, then you can decide to not wear boots, but don't pitch an idea that would ruin it for the people that both like to play a Khajiit or Argonian and wear a full suit of armor.
This. I intentionally didn't wear shoes as an argonian in Oblivion because I liked how it looked. Don't limit the players. If you don't like something, limit yourself.