If you have more than one pup_save on the same partition, you are given an option to choose which to use. For example:
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PLEASE CHOOSE WHICH SAVE FILE TO USE
0 none
1 pup_save.3fs
2 pup_save2.3fs
So what you do is just create "dummy" pup_save files in all the partitions that have real ones -- so at bootup you can keep selecting "0" until you reach the partition you're interested in.
All you need is to create (empty) files named "pup_saveX.3fs", where X is anything, but preferably quite distinct.
You can create those files by selecting "new file" in rox, or in a terminal"
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touch /mnt/hdb4/pup_save-hdb4.3fs
(If you've already got two or more pup_save files on a partition, you obviously don't need to create a dummy. You can find out the partition you're on by looking at the text just above the "PLEASE CHOOSE" message, where it'll say something like "EXT3 FS on hdb4, internal journal".)