Methotrexate/ Natural Treatment. in Sclero Forums (MAIN) Posted 2 hours ago Hi Itay, Welcome to Sclero Forums! As you've likely figured by now, the risk of methotrexate side effects needs to be balanced against potential harm from the disease and the complications you and your doctor are hoping to avert or assuage. I'm assuming that your doctor is prescribing it for some type of vasculitis (please correct me if I'm wrong.) Methotrexate is a serious medication -- and vasculitis a serious condition -- so it's very important to be well-educated about both of them. Also, if you are not going to take the methotrexate, for any reason whatsoever, it's vital to discuss that with your prescribing doctor so that they can address your concerns and have the chance to discuss the risks/benefits as well as to possibly prescribe something else that you find more amenable. So, please, right now, either put in a call to the doctor to get any remaining questions asked, or start taking the medication exactly as they prescribed...because vasculitis can cause seizures, strokes, paralysis, kidney failure...all sorts of irreversible and even deadly outcomes, depending on the type and severity.