Fun! I love both series!

Final Fantasy vs. Dragon Quest II - I prefer FF, but DQ 2 is very close.
Final Fantasy II vs. Dragon Quest III - DQ 3, one of the best DQ games ever made.
Final Fantasy III vs. Dragon Quest IV - This is close but I like FF 3 better.
Final Fantasy V vs. Dragon Quest V - Ah! My two favorites in each series. FFV gets it though, it is in my top 5 favorite games of all time.
Final Fantasy VI vs. Dragon Quest VI - FF VI
Final Fantasy IX vs. Dragon Quest VII - FF IX
Final Fantasy XII vs. Dragon Quest VIII - DQ 8
Final Fantasy XIII vs. Dragon Quest IX - DQ 9