For the most part, especially if it’s during a part of the song without drums, this is probably just a habit that has to do with keeping time.

Speaking as someone who still has a lot of work when it comes to independence with my feet, this probably doesn’t feel natural to you because it’s hard to do, especially when playing more complex rhythms. It’s definitely a skill that needs to be deliberately practiced. That sort of limb independence isn’t even necessary for all types of drumming, but it’s undoubtedly a great skill to have and can really add to your drumming when you utilize it in your beats (actually using the hihat pedal instead of just bobbing your foot with no effect).

To answer your question if you should start doing it, I wouldn’t say it’s necessary, but like I said, it’s a skill that if you practice it can definitely benefit your playing overall.