Inverse decision theory (IDT) aims to learn a performance metric for classification by eliciting expert classifications on examples. However, elicitation in practical settings may require many classifications of potentially ambiguous examples. To improve the efficiency of elicitation, we propose the cooperative inverse decision theory (CIDT) framework as a formalization of the performance metric elicitation problem. In cooperative inverse decision theory, the expert and a machine play a game where both are rewarded according to the expert's performance metric, but the machine does not initially know what this function is. We show that optimal policies in this framework produce active learning that leads to an exponential improvement in sample complexity over previous work. One of our key findings is that a broad class of sub-optimal experts can be represented as having uncertain preferences. We use this finding to show such experts naturally fit into our proposed framework extending inverse decision theory to efficiently deal with decision data that is sub-optimal due to noise, conflicting experts, or systematic error.