Interesting question. It is dealt with at the bottom of this site (the same one you quoted, incidentally). A summary of the answers there:
Zugos are only a problem when the entire pair are consumed (four cups of wine), but lechem Mishnah wasn't enacted to eat two entire loaves, just to make hamotzi on them (Rabbi Yisroel Shaw)
Some texts of Pesachim 110b ...
It's difficult to explain it as simply being bacteria, as the Gemara (Pesachim 112a) clearly says that food under bed gets contaminated with ruach ra'ah even if it was properly sealed.
Interestingly, there is a machlokes as to whether ruach ra'ah even exists nowadays!
According to Rambam there are other reasons why you can't place food under bed nowadays. ...
Rabbi Ahron Soloveichik explained to me that "Ruach Rah" is referring to things like bacteria and germs.
Our Chachamim, Sages, were very advanced thinkers. They must have seen certain cause and effect. If you don't wash your hands disease etc is transferred. They obviously did not have a microscope to see the bacteria or germs, however they identified a ...
That the Gra was very careful about the Talmudic prohibition against uncovered beverages is recorded in Maaseh Rav #95.
The details of this prohibition are recorded in the Tur (YD 116) and earlier by the Rambam (Rotzeiach 11:6-15). You may be interested particularly in Law #7 there:
ואלו הן המשקין האסורין משום גילוי--המים, והיין ואפילו מזוג, ואפילו התחיל ...
The Machatzitz Hashekel Orach Chaim 4,1:3 quotes the Bach from Tolaas Yaakov in the name of the Zohar that one shouldn't walk 4 cubits after waking up in the morning without washing ones hands Netilas Yodayim. So a bowl with a cup next to one's bed is the solution. But the Mordechai (Rishon) seems to be lenient that one can walk till the sink to wash ones ...
The Shulchan Aruch 4,18 says one must wash ones hand after going to the toilet, the Mishna Brura seif 40 explains that even if one merely enters the toilet he must wash his hands because of the רוח רעה the metaphysical contamination of his hands and the Kaf Hachaim adds ideally one should wash 3 times each hand after going to the toilet as this Ruach Raah is ...
Per Rabbi Ovadya Yosef Zatzal one would have to wash again if he touches the hands of one who did not wash yet.
מי שנטל ידיו שחרית, וחזר ונגע בידיו של מי שלא נטל ידיו שחרית, חוזר
ונוטל ידיו, אף אם נגע בידי חברו כשידיו יבשות.
According to Rabbi Kaganoff's article:
Yet another stringency is that one should be careful not to touch food
without first washing away the ruach ra. However, if one did touch
food prior to washing, the food may be eaten (Shu’t Shevus Yaakov
2:105; Artzos Hachayim, Eretz Yehudah 4:4; Darchei Teshuvah 116:35).
If I have a chance to get to any of ...
Rivevos Ephraim 8:7:1 writes that he searched and did not find anyone who rules on this.He writes that it seems that one does not have to rewash ,but it is good to be machmir and wash again without a bracha.
One of the poskim in Baltimore told me that his mesorah is to follow Rav Chaim Pinchas Scheinberg z"tl who wasn't machmir for the gemara b'dieved. (The Rav also mentioned it's still considered fine l'chatchila by putting a grain or two of salt into the egg for it to be considered mixed to remove the sakana issue.)
Rabbi Avigdor Nebenzahl (notes to Mishnah Berurah 1:2) quotes the Vilna Gaon as saying that after the martyrdom of Graf Potocki (the famed “Ger Tzedek of Vilna”) in 1749, ruach ra'ah was no longer powerful enough to mandate washing immediately upon rising. From a more technical perspective, Shevut Yaakov (3:1) notes that this ruling is nowhere to be found ...