Dfyjkt

According to WikiVoyage info:

Be careful if entering or exiting Israel by land though, as a stamp
from the land border crossing or a neighbouring country with Israel
will be taken as evidence that you have visited Israel, and could also
result in you being denied entry to any of these countries.

I want to visit Jordan and Egypt (neighbour countries) and then Sudan (which is in the block-list). Is it likely I'll have any problem?

UPDATE: Just to clarify: I'm not entering Israel. I'll use the Aqaba-Nuweiba boat and continue through the south of Egypt to the Wadi Halfa border. But after reading this, I'm wondering if I can run into problems to get a Sudan VISA due I'll have an Egypt and Jordan Visa stamp.

You should have no problems with this itinerary. The comment on Wikivoyage is directed at those who use two passports to evade these difficulties. If your Israeli exit stamp is in passport #1 and you have a Jordanian entry stamp from the Israeli border in passport #2, Wikivoyage is saying you may still be refused entry by Arab League states like Sudan. I've heard rumors of this situation happening rarely, but it depends on that particular customs officer's knowledge of Israeli border crossings (generally not so extensive). It doesn't seem to apply to your situation because you are not crossing to Israel at all.

The countries that have a problem with Israeli stamps in passports have a problem with Israel (the country) or maybe Jewish people (the religious group).

The reason why they do is historic. In all due brevity, a Jewish nation has existed in areas that are now known as Israel in varying degrees of independence from 1000 BCE to around 100 or later CE. After Jews had left this area, they termed this diaspora and considered it a temporary phase before they could return to the same place again. In the meantime, the area was conquered by Arab and other muslim rulers who spent most of the second millenium CE in that part of the world. After the Second World War, a country for the Jewish people, Israel, was founded, which the muslim surrounding countries considered a breach of diplomatic standards and whatnot; therein lies the difficulties of the Israel–Palestine conflict.

Considering this, those countries that do not accept Israeli passports or passports containing Israeli stamps see both Jordan and Egypt ‘on their side’ — while both countries have noteable minorities of other religions, they are predominantly muslim. They are also both members of the Arab League, which also includes most countries that do not accept Israel.

Therefore, not visiting Israel but taking the ferry from Aqaba, Jordan, straight to Nuweiba, Egypt is their preferred way of going from one of those places to another. Any restrictions they have will be based on using the Aqaba–Eilat or Taba–Eilat border crossings.

And finally, even though anecdotic evidence is bad, I have briefly known somebody who travelled by bicycle through Jordan, took the ferry to Egypt, spent some time there, back to Jordan, back to Syria and onwards via Turkey to Iran and eastwards. She had no problems on that route, and Iran and Syria are two of the worst countries when it comes to Israeli passports or stamps. (This was in the first half of the 2000’s.)