Is it shown that our universe is stronger and less soft/weaken spots than the walternate`s universe?
NO. Unfortunately Fringe has hundreds of inconsistencies and plot holes and the reason for them is the fact that J.J. Abrams didn't think the progression of the show through when he started it.
From an interview:
HitFix: And when you started with that pilot, how much of where we ended up do you think you had in your mind?
J.J. Abrams: We knew alternate universes. We knew The Observers. We knew, even when Walter first sees Peter at the institution and he
checks his eyes, we knew what was going on and why. But what we didn't
know was sort of... Everything. We didn't know how crazy and wild and
big it would go. We didn't, of course, know the jump forward in the
fifth season. We didn't know some of the details of the Cortexiphan
stuff with Olivia, but we knew that there was something she had gone
through. You always have the best idea at the time and you think,
"That's kinda where we're gonna go" and the closer you get to doing
it, the better idea comes up and you go, "Oh my God, what about that?"
So it's always a leap of faith a little bit.
In addition to that there are a lot of sites out there that have created whole lists containing all the plot holes, continuity mistakes and inconsistencies of Fringe. Some examples:
Personal comment: I'm not sure on which season are you on but these plot holes start coming up on the second half of the third season. Up until that point the show looks extremely well thought.