update issue from 1.6.2 to 1.6.3 using alternative update package

[asm23]

Hi, I use the alternative package
ftp://ftp.lyx.org/pub/lyx/bin/1.6.3/LyX-163-4-19-AltInstaller-Update.exe
to update my 1.6.2 version.
After updating, I found that in "Lyx preference -> paths", it is still

D:\Program Files\LyX 1.6.2\bin;d:\Program Files\MiKTeX 
2.7\miktex\bin;D:\Program Files\LyX 1.6.2\etc\ImageMagick;D:\Program 
Files\LyX 1.6.2\etc\Metafile2eps

Note, all the folders were still "LyX 1.6.2", so, the Image converter 
can't work till I change these names to "lyx 1.6.3".

This is quite annoying, because, every time, after running update(AFAIK, 
every update), I have the wrong path in "Lyx preference -> paths".

Is there any way that I can do to solve this:

for example, use a relative path?

or the LyX-163-4-19-AltInstaller-Update.exe can automatically change 
these paths.

Thanks.