There certainly are some benefits to performing your chakra healing ceremonies at night. One is the presence of the moon and stars to help you feel guided and protected.
Additionally, night time has almost always been associated with intuition and inner light. So, if you're hoping to open your third eye or crown chakra, night time might be the best time!
However, you do not need to feel that your practice must be done at night. The best time for chakra healing is when you have time to practice! So, don't wait. Go for it.