I did some research and found my answer. Thank you!

How did you remove bubbles?@Ashten Stambersky

Ji-Yun Kang,

There are a few methods.

1) You can use a vacuum to remove the air between the slides.

2) Take a pair of forceps and very gently push the air bubble to the side.

3) Gently tap the coverslip with your finger from above simultaneously. The bubble moves towards the side of the coverslip and out of the area of the section.

I have found that these work best, also the reagent may be too old and prone to bubbles. Best to use a newer reagent.