I feel the same way. Using the Sonic series as an example: I love Sonamy which is popular, but I also love characters like Chris and Elise and pairings involving them, which are unpopular.
If I like something, I like it, regardless of whether it's popular or not. Sometimes it will be, sometimes it won't be, but popularity is never the deciding factor in whether I like the thing or not.
It's all about having your own identity, and being true to yourself. =3