Could the ship's transporter be locked onto itself and dematerialize all its own machinery? If it did, there would be no "pattern buffer" (a storage device) to hold the reassembly instructions, and no machinery to perform the reassembly of the machine. It sounds absurd. At best, a matter stream would fly off into space never to be seen again.
And yet that's what Mr. Data's personal transporter does in Nemesis
. For me, that was over the line. Advanced technology is one thing, but the idea that all the transporter machinery gets dematerialized with you, and yet it continues to function, is insane.