Did you reformat and clean install? If not and you installed over the top of the old system, you could have kept some problems.
What are the boot problems? They might be related.
Are other USB devices being recognized? If not, it sounds like your USB ports are not enabled.
This could be in your BIOS. Did you reset your BIOS settings or replace the battery? Easy enough to check. Do they show up Enabled in device manager?
If your printer is the only USB device not being recognised then there might be something wrong with it. Was it switched on when you attached it?
Do the lights indicate the Ready state? Does it print a selftest?