The only somewhat contemporary art (That I know of) depicting the conquest of the area was made, or commissioned by, the Spanish. It seems odd that the various massacres, wars, and trade encounters with foreign peoples wouldn't be depicted.
At the San Salvador build site there's a replica of Kumeyaay rock art that appears to depict Cabrillo's main ship. Cabrillo landed in San Diego in 1542.
I have a book of documents/excerpts (Mesoamerican Voices edited by Restall, Sousa, and Terraciano) from an undergrad class I took on colonial Mexico. It contains reproductions of sixteenth century indigenous-made lienzos from Tlaxcala that feature Cortes and other Spaniards. The lienzos depict the Nahua lords of Tlaxcala receiving communion (with Cortes and Malintzin among them), Cortes with the help of Malintzin negotiating an alliance with them, the siege of Tepotzotlan, and the siege of Quetzaltenanco.
Here's something about them.
The Codex Aubin and Codex Telleriano-Remenisis also depict the conquest.
