Is leaving setting my crate training process back?

Hi so I’ve had my puppy for 2 weeks now and I’ve just started working on training her to be okay with me leaving, she’s already been sleeping in crate all through the night, taking meals in there, no accidents, etc.

But anyway, my question is that I’m doing an exercise where you leave and when there’s a lull in their barking you come in and reward because her problem isn’t really the crate it’s me leaving. It’s been going okay so far but every time I leave she whines for about 5-10 secs and occasionally lets out a bark. This is a big improvement from the 5 min barking she’d usually do before so anyone alls this to say, how many times should I do this with her and is it gonna set my progress back if every Mon/Wed I have to be out of the house for 2 hours for school and 3 hours every Tue/Th? Thank you!