I agree with you to a degree... But when a Jew who has gone off the derek returns and is told that he must not mix dairy and meat it requires a certain degree of faith in order to follow the commandments. This is the whole concept of Chock, or a commandment which has no basis in logic or reason. If a Jew were to only do those things which made sense to him then many mitzvahs would fall away. The Chokim are there in order for us to demonstrate our faith.
I said within the system of the Torah. This is what I said exactly- "We are supposed to use logic, sense (would says common sense, but see that it is not soo common these days)
and the Torah in discovering the truth.
This is obviously after accepting the
whole system of the Torah, and not just bites and pieces.