Hi,
both tools are independent of each other,
only the viewer is the same,
the remapping and tiling (tilesize/level calculation), jpeg compression settings and so on can be and are different, so also the result can/will be different,
you can see (and change) the settings of the "MAKE PANO (MULTIRES) droplet" in the "kmakemultires.config" file,
the settings are also documented there,
about the larger folder in Panotour Pro - the filesize mostly depends (beside of the image content) on the jpeg compression settings,
best regards,
Klaus