if the next playthrough is going to be on hard- i'd back up your current save and go for 100% in the 2nd one. You'll want to have as much XP as possible, and as much access to energy as you can get.
I did a good/normal playthrough and maxed out everything and got 100%, then I did my evil/hard playthrough and was kind of bored of most side missions. I only did the 2 or 3 types that appealed to me. I had a good amount of skills by the end, but not everything, and i didn't have a lot of energy. It wasn't too hard though.