You always have these glitches no matter how much preparation you do and how much you try to anticipate problems; you never can anticipate them all. So this is just inevitable and you have to just work through the problem and eventually we'll get everything solved,
It's a lot of work, but this is the kind of thing you have to do when you put a new program in; it's just inevitable and you learn to live with it and do what you need to do and move on.