The Timor Monitor is scientifically known as Varanus timorensis, with the species name referencing the Indonesian island of Timor where the species was first described. The common name directly identifies the type locality, though the species actually occurs across multiple islands in the Lesser Sunda Islands of Indonesia including Timor, Flores, Roti, and several smaller islands. This broader distribution is sometimes reflected in alternate common names referring to the island complex rather than Timor specifically.
Taxonomic classification of this species has been subject to revision and debate. Historically, several populations from different islands were sometimes classified as separate species or subspecies, though current consensus generally treats V. timorensis as a single species with geographic variation rather than distinct subspecies. However, some sources still recognize subspecies such as V. t. timorensis (nominate form), V. t. similis, and others based on geographic populations, though these designations are not universally accepted. The taxonomic uncertainty reflects the difficulty of studying geographically isolated island populations.
In the reptile trade and among hobbyists, this species is sometimes called the Spotted Tree Monitor or Timor Tree Monitor, referencing both their pattern and semi-arboreal habits. However, they are not exclusively arboreal like true tree monitors (such as V. prasinus complex), spending significant time on the ground as well as in vegetation. The descriptor 'tree monitor' in their common names can create confusion about their care requirements, as they are more accurately considered scansorial (climbing but not exclusively arboreal) rather than strictly arboreal.
Older literature occasionally uses alternative scientific names for populations now considered V. timorensis, including synonyms that have since been consolidated under the current species designation. Among monitor enthusiasts, they may be referred to simply as 'Timors' or occasionally as 'dwarf monitors' in recognition of their relatively small adult size compared to many monitor species. The consistent use of Varanus timorensis in modern scientific literature has helped standardize identification despite historical taxonomic confusion.

