"Real" space (space that contains the kinda things you're talking about) actually contains very, very few of such things, due to it's vastness. Hell, Colorado contains a planet that spews lava to a height of "hundreds of Kilometers"...yet Denver is still inhabitable...
The only system I could really see this working in is Omega-11 (where harmful storms are alluded to)...but we don't really need to make that system any more deadly.
'Sides, FL ships would be designed with the hazards of space travel in mind...if you can withstand a focussed beam of laser/tachyons/plasma, a mere solar storm would be nothing.
Also, from a gameplay perspective, these would end up being either monotonous, regular events (for established players), or random, terminal events (for new players)...imagine if you've never seen one before, and you've just loaded your shiny 2k transport up with your life's savings...only to lose it all due to a random event...I had enough trouble with NPCs whilst building up, let alone something so vastly removed from the original game...