MM can run user-scanned charts if you get them into QCT but the process for this is complicated.
IO540,
I've just found out how easy it is to make qct maps.
Here's one of the Shoreham instrument approach made from the AIP pdf - you can do this with any tiff or png image. It works OK in MM Tracker on my Android so it should work on your iPad.
Also transferring loads of QCTs (e.g. the UK airport diagrams) is clumsy via the WIFI / browser transfer.
MM recommend that you use iTunes to transfer maps & data to the iPad.