The Villaseñor surname was used by members of the Ruiz de Chávez family and their descendants during the XVIIth century. This had been done first by the children of Andrés Ruiz de Chávez and María de Ábrego y Castilleja, these were all born in the first half of that century. One of the children of this couple was in fact named "Juan de Villaseñor", just like the Villaseñor's lineage founder. 

The origin of the use of "Villaseñor" seemed at first to be through Andrés Ruiz de Chávez ancestry, this being because of his mother Leonor's second surname which was "Corona", some genealogists interpreted this surname as being one of the variations used by the children of Juan de Villaseñor II and his wife Catalina Corona, their children used interchangeably the surnames "Villaseñor", "Cervantes" and "Corona", therefore it was thought that maybe she could've been a granddaughter of these two and thus some cited her as having been "Leonor de Chávez Corona de Villaseñor" despite in life only being known as "Leonor de Chávez Corona". 

But based on the dates not matching and from what has been found by genealogists and collaborators of this forum (for more on that check: https://www.nuestrosranchos.org/index.php/node/34175), it's nearly impossible for her to be the source of the "Villaseñor" surname, leaving us with the only option being through Andrés Ruiz de Chávez's wife María de Ábrego y Castilleja. 

Her son Rodrigo in his marriage record cited her as María de Villaseñor instead of Ábrego y Castilleja, then her son Ramón also did that a couple of decades later making it possible for her to be our missing Villaseñor link. On her origins there had been a very big confusion, for a very long time it had been thought that María de Ábrego was a daughter of Beatriz de Castilleja and her husband Pedro de Ábrego, this being thanks to the fact that they had a daughter with this exact name, but the issues with this parentage were that first she would have been over 50 when she married Andrés Ruiz de Chávez in 1615 and thus wouldn't have been able to give him children and second she cited herself in 1607 as being 52 and already being a widow, making it impossible for her to have been the same person who married Andrés. It was then later found that there were actually 2 Maria de Ábrego y Castillejas, one born c. 1555 and the other being born c. 1595, our María who married Andrés being the latter. It has now been thought that she could have been a daughter of our first María with an unknown Villaseñor, that would explain her name and surnames and also allow us to finally determine who her real parents were, on this hypothesis it has been thought (Las tierras del rey page 118) that Maria's (1°) husband might have come from the Patzcuaro's Villaseñor, which were children of Francisco de Orozco (2nd son of Juan de Villaseñor), from evidence found now it's quite likely and this would also explain why María de Ábrego (2°) and Andrés Ruiz de Chávez's wedding godparents were Leonel de Cervantes and his wife Beatriz (Leonel was a son of Francisco and thus would've been a direct uncle of María). Unfortunately due to the lack of found records it's quite hard to determine whether this is actually the case leaving us with the doubt. 

Luckily I've been able to find a later connection of the Ruiz de Chávez with someone with very certain Villaseñor ancestry. Our cited couple (Andrés & María) had a son named Diego, he had a son named Gerónimo, this Gerónimo married at an unknown point (c. 1678-1683) Leonor de Navarrete possibly in either Morelia or Tarimbaro. Leonor de Navarrete was according to the book "Las Tierras del Rey" a "vecina de Copándaro" meaning she lived for some time in the town/area of Copándaro, other than Navarrete/Navarro she also used the surnames Quesada and Abalos which allowed us to determine that she was very certainly a daughter of Alonso de Navarrete and Luisa de Quezada [y Abalos] who resided in Copándaro around this time, the latter being a descendant of Juan de Villaseñor through his son Diego. At the moment I haven't been able to find the marriage/marriage intent record on Geronimo and Leonor and thus haven't been able to certainly determine whether she actually was a child of Alonso and Luisa (although she certainly was), this marriage record could also maybe help us find whether there was a known Villaseñor connection between these two, since both were (if the hypothesis is true) 4th cousins and maybe they could've known that they shared a common link and perhaps could've mentioned something about it in their record. But since they had a higher than 4th grade of consanguinity they weren't forced by the church to show where their common origin was, but maybe still either them or some witness could've mentioned it just as a curious fact saying something like "they were known to have a parentage but it was 5 generations ago", even something that vague could help us answer this doubt, since their only possible connection is through the Villaseñor, but for that we need to find these records. 

If anyone can help find them in FamilySearch it would mean a lot, thanks.