While Yoda sensed that the Sith's plan involved the Clones, it was too late to prevent Order 66. Instead, he placed his faith in the Force and allowed the dark events to happen.
With the help of Chewbacca and Tarfful, Yoda was able to escape Kashyyyk before he met the same fate in Revenge of the Sith. In the aftermath of Order 66, Yoda tried to take on Palpatine himself before realizing that the Sith Lord had become too powerful.
Yoda's warning came as a vision of Jek, one of the two clones who eventually tried to kill him on Kashyyyk during Order 66. This was seen in "Sharing the Same Face," an adaptation of The Clone Wars season 1, episode 1 "Ambush" which was featured in the anthology The Clone Wars: Stories of Light and Dark.
After ably deflecting the bolts from the clone troopers, Beq took off on the speeder through the skies of nighttime Coruscant with Grogu by his side. Still chased by the clones, he avoided their attack, and, with the help of some Senate guards, he and Grogu boarded a ship and escaped via lightspeed.
Upon Yoda's realization of his own mistakes, the Revenge of the Sith novelization reads, "He knew, at that instant, that this insight held hope for the galaxy. But if he fell here, that hope would die with him." And so, Yoda hid away to keep the hope alive and train new Jedi differently than before.
Why Yoda had a Vision of Order 66 but Did NOTHING About It [CANON]
Why didn t Yoda warn about Order 66?
So, it's likely Yoda didn't want to interfere and alter the future, as he'd be at risk of preventing the Sith from being defeated many years later. While Yoda sensed that the Sith's plan involved the Clones, it was too late to prevent Order 66.
When Supreme Chancellor Palpatine issued Order 66, Unduli was captured and taken into custody by the clones she'd once commanded. But Yoda escaped with the assistance of Tarfful and Chewbacca.
A simple answer is that Grogu is one of the Jedi younglings, and it is likely protecting the younger members of the Jedi Order was of high priority for the senior members when the attack on the Jedi Temple commenced (especially the Dean).
Is Grogu Yoda? According to the events of "The Mandalorian" so far, Grogu and Yoda are not the same character. They are simply from the same species. The name of this species has never been revealed since "Star Wars" creator George Lucas wanted to give Yoda a sense of mystery.
Did Yoda know that Order 66 was going to happen? And if he did, why did he not do anything? Ah, alright. According to TCW Season 6, he did, to some capacity, he didin't know exactly when, why, or who was Sidious, but he did know all the Jedi were going to die, and he also knew the Clones were set up by the Sith.
Vader did not hunt for Yoda in any cinematic depiction. He and Sidious could not find Yoda as he had exiled himself on the planet Dagobah which had strong dark side energy that masked Yoda's presence in the Force.
All clones were given a behavioral modification biochip that could be activated by remote order via voice command; Supreme Chancellor Sheev Palpatine, for example, only needed to tell clones to execute Order 66, and the order was carried out.
Return of the Jedi establishes that Yoda was aware that Anakin Skywalker had fallen to the dark side and become Darth Vader. When questioned by Luke Skywalker, he confided that Anakin was Darth Vader. Later, Obi-Wan Kenobi's Force ghost confirmed that Anakin had indeed fallen to the dark side and become Darth Vader.
Though he did not directly encounter Yoda, Vader's meticulous investigation and strong understanding of the Force allowed him to deduce that if Yoda lived, Dagobah was likely where he now hid.
Yes, a few Younglings are known to have survived Order 66, including an unnamed Rodian seen in Jedi: Fallen Order. The most famous Youngling survivor is “The Child,” Grogu.
Legend had it that Yoda—a Jedi who became Grand Master—was trained by N'Kata Del Gormo. A Force-sensitive Hysalrian, N'Kata Del Gormo was trained in the ways of the Force and achieved the rank of Master within the Jedi Order.
There are certainly scenarios where Darth Vader would have the upper hand in a duel with Yoda, but in most cases, Yoda would be the more likely victor. Vader wields absurd levels of Force power during his dark side prime that would certainly rival Yoda's own abilities, but likely not exceed them.
In The Mandalorian season 2, Din Djarin and Grogu's encounter with Ahsoka reveals Grogu isn't just any Force-sensitive youngling, but actually a survivor of Anakin's Jedi Temple purge on Coruscant during Order 66.
Grogu (Baby Yoda) was killed by Kylo Ren. Grogu joined Kylo Ren. This is the least likely as none of the students who followed Kylo became part of the Knights of Ren.
While fans don't know the state of Grogu's well-being in the sequel trilogy, his ties to Mandalore might explain why Kylo Ren doesn't kill him. It's likely Grogu stays with Din Djarin and the Mandalorians, and never returns to embark on his training with Luke.
Some clones disobeyed the infamous order than decimated the Jedi order, and refused to execute it. SOME of these Clones include; Captain Rex: Captain Rex, as most know removed his chip that would later be the way that Palpatine would execute order 66. Wolffe: As with Captain Rex Wolffe removed his bio chip.
