Yes.
Non-payment of rent has nothing to do with your obligations as landlord.
I suggest you fix the items ASAP so you don't come out looking like the bad guy in court where they might be able to use your non-compliance as a defense to eviction.
Besides, you'll have to fix those items for your next tenant unless you want to remove them before you rent it out again.
If they haven't paid by the "pay or quit" deadline, you will have to file for eviction in court before you can have them removed from the property.
Having been a landlord in Phoenix for 20 years, I have to agree with Mr K that you should get out of the landlord business if you are clueless about how landlord tenant law works.

