Here's a good reference on the top: https://sites.google.com/site/mikefocke2/thetop-itsmaintaince%26replacement
There are several topics covered and you can get a good idea of the various components in the system and narrow the number of components you need to check. GFOX sounds like he could have a problem with the motor or the top relay.
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2000 Arctic Silver/Black, Hard Top, On Board Computer
PNP Rear Speakers, HAES 6-Channel Amp, Avic Z140BH,
Painted Bumperettes, 2004 (OEM) Top, Homelink integrated in dash with Targa switch, 997 Shifter, Carrera Gauge Cluster with silver gauge faces, heated 997 adaptive sports seats, Litronics, silver console
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