First of all I too advise you to go for Pridor due to the fact that Fuel Average, Looks and Road Grip of Pridor is the best one in 100cc motorcycle line in Pakistan.
Your concern regarding the tyre change on the day of purchase is not valid. Pridor has good tyres and road grip so some honrable PW members have changed the tyres according to their needs.
I have done alignment of my Pridor on approx 3000Kms so its also not the point of worrying.
I have bought the bike from McLeod road Lahore Market with the copy of my CNIC and the dealer charged me more Rs.3500/- for registration of my Pridor. After a weeks time I got the registration receipt and in a months time I got the registration book with file so no hassle at my end.
Regarding your question about the checklist, you should purchase the Pridor by looking it around by focusing its color, stickers, tyres etc as I haven't seen any complaint during purchase.
Finally, if you belong to Lahore, then I am here to go with you for purchasing your Pridor.