I use Frixion pens for most marking jobs, but I found them not so good with quilting stencils. I think the blue wash out pens are best for those.
I also found that the Frixion pens sometimes leave a slight mark on some fabrics so you need to test them on any new fabrics you use. Plain black and red were the ones I noticed the marks left behind.
@rubywishes . They say if you put the quilt in the freezer (?) then the marks come back. Actually, I tried it with a scrap, and it does, but not very clearly. I guess, if you live somewhere as cold as that then it may be a problem.