A lot of people consider Monad transformers as an ugly hack to partially paper of the lack of compositionality of Monads (hence alternative attempts like extensible effects). Something that composes nicely has low overhead, does not introduce additional boilerplate or require making arbitrary additional choices (such as ordering). But Monad transformers do often involve non-trivial overhead, additional boilerplate (not sure how much things have progressed since mtl) and extraneous complexity.