Baby Having Trouble With Whole Milk

Betthany • Stay at home wife and mother. Married my best friend Nick 6/28/14 and gave birth to our son Noah 1/4/15.
So we recently switched my son to whole milk when his formula ran out. He will be a year old at the end of the week, and we got the go ahead from his pediatrician. However, he has been having issues ranging from constipation, to gas, to vomiting, and even some stomach discomfort it seems. He previously was on Gerber Good Start soothe formula for these issues. So, I'm wondering if I should give him the toddler version of that or what I should do. The pediatrician seems to think it's something he will grow out of but it really bothers me seeing him so sick and uncomfortable. So, any ideas or advice would be greatly appreciated.