Did you by any chance abort any steps in the jailbreak process and rerun the jailbreak? I remember some steps taking about 10 minutes, where I thought the process was stuck and I aborted the process and ran it again.
This caused my device to be a very weird state where it would not respring and show the palera1n app, while the terminal said it was successfully jailbroken.
How I fixed it at the time was by restoring rootfs with
./palera1n.sh --restorerootfs <iOS version>
After that do a fresh restore and rerun the jailbreak. Follow the steps and be patient keeping in mind that some steps can take a while.
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lockz3's post in PaleRa1n App not Showing after Successful Jailbreak was marked as the answer