If you are using finely powdered MHRB, then you do not need to wait as long as three hours. The first extraction i ever did i waited 24 hours, thinking the bark needed time to break down. Since powdered bark breaks down really quickly (specially when using the 1g Lye: 1g Bark ratio) it won't take long.
I usually throw the bark in when the jar is a bit cooler to touch. Some people say you can throw the bark in immediately, which would probably still give ok results. I still think, even if using finely powdered bark, you should wait about an hour.
If you use HDPE grade plastic, then you won't have to worry about contaminating your product. I hope that helped clear it up for you.