You’re right about the skills being locked. I think it’s a massive waste of perk points to have to unlock basic skills that were given to you in other Bethesda games like lock-picking, stealth or pickpocketing. You level up pretty slowly as it is. These seem to be the only three that are like that, but then you also get other annoying perks. For example, you have to unlock basic weapon/spacesuit modification crafting through perk points, and when I say basic I really mean basic. You can make only a very small handful of modifications at level 1 and they barely have any impact. You must level them up to be able to craft better mods for your gear.
In a game that is lauded as being 200+ hours long, it seems like they REALLY want you to get to NG+. I really dislike that because I would love to play the entirety of the game, skills included, on my first playthrough of the game. You barely get XP and leveling is so slow. As you get higher level, of course the amount of XP required increases, making it even more slower. I’m currently 38 hours in, taking my time not doing any major grinding or exploits, and I’m only level 25 or 26. This is pretty slow, and I make sure to sleep every time I can (+10% xp for 24 minutes) and eat xp boosting foods like Shepards Pie (+2% xp for an hour) or Xenoyaki (+2% xp for 30 minutes). This stacks to a total 12% xp boost for only 24 minutes of playtime, and that counter goes down while you are in your Tab menus or in dialogue with someone. It gets kind of annoying having to check so constantly to make sure you xp boost is still active before turning in a quest, even more so annoying when you accidentally turn in a quest without it on. I finished the Freestar Rangers final mission without the xp boost and got something like 150xp which could have been 168xp instead with boosts active. Small, but the boosts go a long way.
I’m really just nitpicking and wish you could level up even if only slightly faster. You can sleep with your spouse to get a 15% boost, so 17% with the food, but that takes a long time to get into romantic relationship with one of the companions. I have barely touched the main missions anyways past where you get the Fus Ro Dah powers.