This paper focuses on confidence scores for use in acoustic model adaptation. Frame-based confidence estimates are used in linear transform (CMLLR and MLLR) and MAP adaptation. We show that adaptation approaches with a limited number of free parameters such as linear transform-based approaches are robust in the face of frame labeling errors whereas adaptation approaches with a large number of free parameters such as MAP are sensitive to the quality of the supervision and hence benefit most from use of confidences. Different approaches for using confidence information in adaptation are investigated. This analysis shows that a thresholding approach is effective in that it improves the frame labeling accuracy with little detrimental effect on frame recall. Experimental results show an absolute WER reduction of 2.1% over a CMLLR adapted system on a video transcription task.