Also, until I read this I thought that Germany just wanted to revive the old constitution, not redraw everything. If Merkel want to change something about the preamble, France may want to change something else. Soon you end up negotiating about everything and the ratification process will have to start from stratch.
But maybe Merkel doesn't realize this. Anyway, her idea of reviving the constitution struck me as a pretty useless way of wasting her political capital (which she still has in Europe). Germany is going to run into a brick wall during its 2007 presidency, like they never saw it coming.
A couple of tidbits:
The 'Gottesbezug' was a common demand of the CDU and the CSU at the time when the convention was finished and the haggling at the European Council over the Constitution about to begin. So, they lost out there.
The MFA of Germany (Steinmeier) is from the SPD. This means that within the CDU, the people who have to worry most about the consequences of what Merkel says (besides Merkel herself) are the leaders of the Parliamentary Committees on the EU and Foreign Affairs.
I would guess that the call for this reference from God is mainly coming from the (more catholic) CSU and its leader, Stoiber. But it's also quite possible that it's simply Merkel who feels strongly about it.