First close PTXprint, then if you unzip the PTXprint Archive file (e.g. <XYYprj-CfgName>PTXprintArchive.zip) into a temporary location and then copy the various config settings found in this folder to your live project, then it should all just work as before:
\XYZprj\shared\ptxprint\CfgName\
But, if the TeX macros have changed (which is quite likely if we’re talking several months since you last ran this Prj-config), there could be layout changes which will throw off all the careful alignment/balancing work that you’ve done. However, the archive also contains a backup copy of all the TeX macros, so you can tell the current version of PTXprint to use those older macros if you wish to match the output precisely. To do this, you will need to use the command-line parameter** to point to the location (\src folder) of those older TeX macros:
ptxprint.exe -m “path-to-old-macros”
I hope this helps get back to where you want things to be.
** Note that using the command-line options isn’t as slick as it should be. More information here.