Yes, the way she acts is completely normal. Some bunnies “forgive” you fast for your “mistreatment” when you give them meds or take them to the vet while other takes a while (my Aki has a very good memory for these things and will look at you distrustfully and run away when you come close for weeks afterwards).
About the vaccination, Nobivac has caused quite a few problems. It’s a “stronger” vaccine than the other as it covers Myxomatosis for a year AND VHD for a year and I know several rabbits who died or had a very severe reaction to it (mostly making a previously cured ailment come back, only worse, or making an underlying problem come to light but worse, and problems of GI stasis). There were several report of pharmacovigilance regarding the product (most vets don’t know about it even though it’s been written in the medication label for two years). So even though of course, a lot of rabbits have no problem with it, I personally refuse it especially since one of my rabbits is not that young anymore. I recommend Dervaximyxo SG33 for myxomatosis and Lapinject (Cunicare depending on what’s available in your country) for VHD. Those two vaccines have been on the market for a long time and I’ve never met anyone whose rabbit had more than a mild reaction to them. The only thing is that you have to tell the vet that you want those when you call to make the appointment because most vets only have Nobivac in stock these days.