Hi Becca, I noticed the same thing with mine. I had a full bottle w/ beans and a 1/3 full mason jar, which was basically the displaced vodka from the other bottle plus a small 200 ml bottle I had. I combined the mason jar vanilla with most of vodka bottle in a large mason jar and added more vodka to the bottle now with more beans (using Jim's 100 greams to 1 litre ratio but since I didn't take the old beans out I'm guessing this will be even stronger), and based on your note I didn't bother to heat it.
The 1000 ml jar of vanilla should get me through the next few months.
I threw some whole beans in the jar too and will fish them out when I need a bean for anything.