Currently, my partner is working from home and I can attest to their feelings in this work from work situation. They get burdened with more work because there is no personal connection and they could simply quit at any time without much of a hassle. It seems like they work much more these days as compared to working in an actual brick and mortar building for less salary. I also agree that it has started to foster issues that we need to work through now as a couple.
Working from home also means there is no division between work and home, which of course is going to impact on working hours, but definitely on relationships - mostly for the negative. Hopefully you guys can sort through the issues.