I worked on my SSN while on F1 for more than 180 days for sure. I was also worried that if it would cause issues while applying for H1. But it got approved, and I did not travel outside the country. I don't think it's a huge issue. I'm not sure about GC applications for a spouse though. Hope that helps.
Also, I had a question, do you know how long is the wait on EB3 for GC, or do you know a place where I can check it. I've been searching and cant find the queue for Nepal.

Thanks,