Many Waters

In A Wrinkle in Time Quintet book two, Meg Murry, now in college, time travels with her twin brothers, Sandy and Dennys, to a desert oasis that is embroiled in war.
Sandy and Dennys have always been the normal, run-of-the-mill ones in the extraodinary Murry family. They garden, make an occasional A in school, and play baseball. Nothing especially interesting has happened to the twins until they accidentally interrupt their father's experiment.
Then the two boys are thrown across time and space. They find themselves alone in the desert, where, if they believe in unicorns, they can find unicorns, and whether they believe or not, mammoths and manticores will find them.
The twins are rescued by Japheth, a man from the nearby oasis, but before he can bring them to safety, Dennys gets lost. Each boy is quickly embroiled in the conflicts of this time and place, whose populations includes winged seraphim, a few stray mythic beasts, perilous and beautiful nephilim, and small, long lived humans who consider Sandy and Dennys giants. The boys find they have more to do in the oasis than simply getting themselves home—they have to reunite an estranged father and son, but it won't be easy, especially when the son is named Noah and he's about to start building a boat in the desert.
Books by Madeleine L'Engle

A Wrinkle in Time Quintet
A Wrinkle in Time
A Wind in the Door
A Swiftly Tilting Planet
Many Waters
An Acceptable Time
A Wrinkle in Time: The Graphic Novel by Madeleine L'Engle; adapted & illustrated by Hope Larson
Intergalactic P.S. 3 by Madeleine L'Engle; illustrated by Hope Larson: A standalone story set in the world of A Wrinkle in Time.
The Austin Family Chronicles
Meet the Austins (Volume 1)
The Moon by Night (Volume 2)
The Young Unicorns (Volume 3)
A Ring of Endless Light (Volume 4) A Newbery Honor book!
Troubling a Star (Volume 5)
The Polly O'Keefe books
The Arm of the Starfish
Dragons in the Waters
A House Like a Lotus
And Both Were Young
Camilla
The Joys of Love