Wait - if you want the sequences in the programs in a Multi to run at independent speeds, isn't that what the sequence's "Sync" (On/Off) param is for? I just tested it, and if you turn Sync to off, then the Rate param changes to BPM (rather than 1/16, 1/8, etc.) and all sequences in the Multi run completely independently of each other.
If you do want to stay in sync but have the sequences run at double speed or triplets, you can set Sync to on, and use the "Rate" sequence param (1/16 or 1/16T or 1/8 or 1/8T, etc..)