When Dig mentions Lyla's new job in Metropolis, the closed captions misspell her name "Lila".
Following the opening credits, Cisco is standing in front of a map of the US and Gotham is written roughly in the location of Chicago. In the DCU, Gotham is located in New Jersey across the Delaware Bay from Metropolis which is in Delaware.
There is a message cube left by Harry Wells, but if the New Multiverse no longer allows breaching and never had breaching, Harry (if he still existed at all) couldn't have sent the cube.
Iris says Joe would have to open a RICO case to investigate Black Hole. RICO is federal law and Joe is a city cop, not a federal agent.
Dr. Light proclaims she never misses twice, despite having already failed to assassinate Iris twice.