1000 Gecs and the Tree of Clues received critical acclaim. At Metacritic, which assigns a normalized rating out of 100 to reviews from mainstream critics, the album has an average score of 81 out of 100 based on 7 reviews, indicating "universal acclaim". Ben Jolley of NME praised the album for its "infectious absurdity" and for the diverse array of features, both mainstream and underground, summarising it as "an exhilarating snapshot of pop's alternative future."  The Line of Best Fits Erin Bashford called it "consistently inconsistent" and "a bit of a difficult listen for those not wholeheartedly throwing themselves into the fray," but concluded that "if you want to venture into the abyss, there's a decent amount to marvel at." Ian Gormely, writing for Exclaim!, described the record as "sonic grab bag" but also "a strong rebuke to those who have dismissed the duo as a joke or dilettantes." Pitchfork editor Cat Zhang argued that the remixes make "some of its originals sound like demos," adding that "the guests skillfully mold the originals into creations of their own, while still preserving some of the songs' initial ideas."