The MFW simply creates a sequence... any problems you might have are related to a sequence... not the MFW specifically.
No, this does not matter at all. PHD2 can be in any state.
There are some steps missing here. How did you get from "Run Sequence" to "Resume Sequence"?
What takes 10 min? I don't understand this.
As with this request and several others you have posted, we cannot help you without logs (in this case the PHD2 debug logs as well). If you are interested in saving time, you should always remember to send logs describing the issue (on the first post). My first response will always be to ask for them and then the entire process takes longer. The logs tell the entire story and prevent 20 questions.