Let's see if we can come up with a checklist to enable the top's going up or down:

To lower/put the top down/open the top

1) Speed under 9 mph.
2) Trunk divider deployed and properly set to engage the switch indicating such.
3) Trunk lid completely closed.
4) Top released from windshield frame (a sensor indicates to the electronics when the top is released from the frame, starting the process).
5) Electric trunk lock activated and indicating locked status (this happens when you first hit the button, you can hear the cam, very softly, engaging in the trunk).
6) Spoiler all the way down OR all the way up.

To raise/put the top up/close the top

1) Speed under 9 mph.
2) Trunk divider deployed and properly set to engage the switch indicating such. (And just because the top went down, does not mean this sensor is STILL "happy").
3) Trunk lid completely closed
4) Electric trunk lock activated and indicating locked status (this happens when you first hit the button, you can hear the cam, very softly, engaging in the trunk).
5) Spoiler all the way down OR all the way up.

In either case, the windows will either go down when you release the top from the windsheild frame OR (in the case of the top being already down) when you first hit the button to put the top up. Should you have a blown fuse or some other problem preventing the windows from going down, you top is probably not going to move!

Have I forgotten anything?

(And please note that a bad sensor in any of the item above could stop the top's operation!)