You are quite correct you will need to complete a separate PC for any rating you wish to use outside your company.
The only benefit of being in a cyclic program is that you will notice there will be no renewal date on your instrument rating. There will be a note on P17 under general remarks indicating you are in a cyclic program for the Aircraft Type you are current on. This means you will never need a reprint unless you are doing something outside your company or get a new type rating.