Miles, strangely, blames himself for 'being followed' to Aunt May's house, when by then it was public knowledge that May's nephew was Spider-Man. (The memorials placed in front of her house are evidence of this ubiquity; although, as another plot hole, the obviousness of the backyard shed being a brightly glowing, emblem-showing Spider-Cave entry door would have tipped off the neighbors long before Spider-Man's passing, that May knows Spider-Man). Either way, it makes perfect sense to assume the villains would go to May's to find the Spider-Men they were pursuing.
When Peter Parker, Miles Morales and Gwen Stacy are standing outside Aunt May's door, Peter starts walking away until Gwen fires up a web to pull him back. In the very next shot, Peter is back in place but the web behind him is gone entirely.
Miles' dad is a patrolman in Brooklyn, where he lives, giving Miles a ride to work, etc. But, when the villains show up at Aunt May's house, which is 'somewhere in Queens', he picks it up on the radio and drives over.