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If you are sure the Motor is Good:It sounds like the One Touch is cutting off (controlled by GEM) or the Relay is bad:The GEM (Generic Electronic Module) controls manual down and One Touch Down (OTD) window movement with the one touch down relay.The relay is activated by applying ground directly to one side of the down window relay coil, and is deactivated by removing the ground signal.
Prior to Replacing GEM, you may want to replace Relay first.
The One Touch Down Relay is located in the junction box fuse/relay panel.
Double check Connections at GEM & after that, Remove Positive Battery Cable & wait 5 minutes, Reconnect Positive Battery Cable & try. If still not working, Replace GEM:The Generic Electronic Module is located behind center of the instrument panel. Driver side: