I took methotrexate in the past too, before I was diagnosed with MG. I took it for colitis. I could not tolerate the pills, they caused too much nausea and a feeling of flu symptoms for a day after the weekly dose. I moved on to doing a sub Q shot once a week. I didn't have any negative side affects with that. It really helped the inflammation and pain I was having. It took a little getting used to in order to do the shot, but it does help you in the end.
I hope this information is helpful.