Exactly.
From an RF engineering standpoint, part of the issue with the external antenna is that the user's skin (which is conductive) bridges the 850/1900Mhz GSM cellular antenna with the 2.4Ghz WiFi/BT antenna, changing the length to the sum of
both antennas and thus changing the RF properties of the antenna, effectively "detuning" them and causing the signal quality to deteriorate. At least in theory, this conspires with bugs in the new signal acquisition logic such that is isn't able to re-lock onto a signal causing the now infamous drop from "wonderful" to "pile of poo" to "I see nothing" on the signal strength meter...
IF (and it's a huge "if") the case's embedded antenna was properly tuned (sized) for the GSM frequencies then sure, it might help, but
A) it would be a non-issue since the user wouldn't be bridging the antennas in the first place since the case would be providing insulation
just as you stated
B) I wouldn't really trust "random plastic molding company" to actually get the RF design right anyway.
and finally
C) Since the case would be an "antenna" it would be subject to all sorts of regulatory issues and testing by the FCC and other International communications regulatory bodies which would increase the time to market
and the costs of both engineering the device as well as impacting the final retail price (it wouldn't be inexpensive).
RF is a black magic to begin with and the RF engineers the mages, it's not a simple matter to design a proper antenna. Do it wrong and you make signal quality
worse as we are seeing when we hold our iPhone 4's "wrong".