Think I found it myself: transaction /FRE/ANA_CLEANUP - F&R-analysedatabases opschonen (program /FRE/DB_ANA_CLEANUP) has a option to delete data from F&R Analytics tables, even if no data has been transferred to BI yet.
The documentation states the following:
Clean selected data not in BW: If you are transferring Analytics
data to BW and you need to delete data that has not yet been transferred to BW,
you have to check the option Clean selected data not in BW. This
options should be used in exceptional cases,such as if you need to rerun
FRP for a certain date for all your locations, because this report cleans
data for all the locations.
With the correct date-settings on the selection-screen of this transaction, the undesired Analytics data can be deleted, prior to the new FRP-run.
In all fareness it would a nice idea to have the FRP-run check when run in restart-mode (3 - Restart Without Error) whether or not Analytics data already exists, and issue a message that this Analytics data should be deleted first.(which practically may not be feasible since FRP-run and the 5th Analytics-step is usually run in background).
Alternatively, the FRP-run program could be changed (perhaps controlled via selection-option) to delete any Analytics that is already available for that planning-day on which the re-run takes place.