How to know when Invisalign is finished?

I had an accident about 5 years ago that required dental surgery, and I have had Invisalign done. My last appointment was in January and my Invisalign was supposedly finished. I discussed with my doctor a bottom tooth that was still slightly turned; it's always bothered me and I wanted to know why it wasn't straight. Apparently there was not enough room to turn it, and he said it was flush from the front, which is all I cared about anyways. He asked me if I wanted to change it and when I looked at it I settled and decided it was okay. Soon after I noticed that the tooth beside it was slightly crooked, I believe this to be my dentist's fault because into the second last tray he realized that tooth had not been moving the entire time during the refinements because there wasn't enough room, so he filed it down and it likely moved as much as it could within the time period. I'm not sure how I missed this crooked tooth before but I was sure to leave a note with the dentist that it was a concern. (I was just seeing a nurse to pick up some trays at the time.) I see no real reason why either of these teeth are crooked and I've decided that I am unhappy and just want them fixed. The problem is, I can't figure out if my treatment is finished or not. I believe I've had 2 refinements and I'm not sure if this problem entitles me to a 3rd or if I'll have to pay up. I have some chips on my bottom teeth and a wear facet that still needs to be fixed due to the Invisalign and I have not yet gotten the wires cemented in to retain my teeth (not sure why.) I also don't have the permanent trays yet - I need 2 implants so I'm assuming they're waiting until those are done before the night retainers are made. If I do need another 2-4 trays to fix this and it is not covered with the refinements, how much am I looking at price wise? Thank you.