I was actually in the EXACT same position as you about four months ago.
I had a 95 sedan LX, had the same motor (d15b7... super lame) and was AUTO.
I desperately wanted to swap and convert it since the body had no rust and I had spent a ton of time on cosmetic mods and the sound system and didn't want to lose it all.
If you wanted to swap in a d16z6 or y8 motor, it would run you ~$1500 after all is said and done. That's NOT INCLUDING THE CONVERSION. To convert it would cost you another ~$1300 and if you're doing this route, take it to a reputable shop. A friend of mine converted his teg and the shop went out of business and he had a ton of issues.
I weighed my options and decided to bite the bullet and sell my first car and get a better platform (5spd, better base motor etc.) since it would be so much less to worry about and much cheaper in the end. Just remember that there are TONS of civics out there so there is no shortage of right cars for you
I am MUCH happier with my choice and new car, but again it is all up to you.
Just thought I'd share.
Good luck with it all man, hope this helps.