A chain-stitch multi-needle quilting machine and method provide for driving needles and loopers independently or out of phase, particularly during the starting of stitching sequences. Separate drive motors drive needles separately from their loopers. Alternatively, a single motor drives needles and loopers linked through a differential drive or variably-controllable linkage. At the beginning of a stitch sequence, needles and loopers are separately driven in a split start manner by which stitches can be reliably formed by advancing the loopers ahead of the needles so the looper enters a needle thread loop before the needle enters a looper thread loop. Then the needle and looper can be brought into phase later in the first stitch cycle. The split drive can solve other stitch or thread control problems.