Never been to Istria so cannot comment. Plitvice is great, just use Zagreb as a hub. Problem is the nature of the country means Dubrovnik is right at the bottom so you cannot cherry pick places so to speak, you need to stick to a region if worried about travel. Keep in mind it's not that far, it's still a small country.
We took weeks to do that itinerary from Zagreb to Dubrovnik. If the weather is not really warm, maybe skip the island but i don't see the pointing going to croatia if it is not warm enough to swim. Suha Punta on Rab is amazing, well worth a visit.
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