It wasnt made by bandai without imput from Studio Nue or any of the original creators thus Studio Nue and Shoiji Kawamori made Plus and 7 they decided to make them without including II in the canon as a result II is set 50 years after 7 and in it mankind is containted in the Sol System fighing off the odd Zenthradi attack but in the canon they started sending out colonly mission a couple of years after the original series 7 is set on one such colony fleet. In II they are using the VF-2 where as in the canon the VF-2 was an abandoned design and by the time of 7 theyve had the VF-4, 5, 6, 7, 9, 11, 14, 17, 19, 22, 3000 and 5000 as well as the VA-3, VB-6 and a few others. In II the Macross is an old relic that hasnt been used since the Battle of Macross City at the end of the original but in the canon it was repaired and is the headquarters of the UN Spacy

Theres various other reasons but the most important reason is because the creators say it isnt canon

Hybridchild