Question: Can I rip out two pleats and re-sew them?

Answer: yes you can though you may have to rip out more than two, depending on how you sewed the thing together.

If you haven't sewn in the waistband, you can rip out pleats at the beginning and re-sew. HOWEVER....just how HORRIBLE are they?

Keep this in mind, mad perfectionist or not, it' s your first kilt. You will make more kilts. When you strap the thing on, you can't see all the tiny little imperfections. When it's in your hand and you're sewing, every micrometer of misalignment glares out at you, whispering you SUCK as a kiltmaker in your febrile imagination. When it's on your rumpus, no such whispering goes on.

My point is that unless the first couple of pleats are REALLY bad and render the thing unwearable, you might strap it on yourself, three-quarters done and then go find a good and honest friend and ask them if it's really obvious when you wear it. If they say

"what problem with the pleats?"

or

"well yeah, I can see that it's a little bit off, OK, sure I guess, if you say so, but....."

then hang it, finish the kilt and wear the thing. The next one will be better. If they say

My GOD what have you DONE????

then you might go back and rip 'em out, eh?

It's a kilt, not a shrine. Not only that, but it's your FIRST kilt, made out of excess, inexpensive fabric. Save the mental torture for your ultimate tank.