I can see a very distinct reason for wanting to be able to modify the LyX-
generated preamble directly (without having to use a separate editor).  I'm 
using MathTime Professional II fonts and I want to use it in conjunction 
with the bm package so that I have access to the bm versions of the \bm and 
\hm modifiers.  In order for this to work, \usepackage{bm} _must_follow_ 
\usepackage{mtpro2} and with LyX generating \usepackae{bm} in its own 
preamble, the second \usepackage{bm} in my preamble is rendered useless.  I 
see this as much more of a hindrance than a feature. 

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