Countering Jiraiya's basic offensive moveset.
Yomi Numa-One of Jiraiya's most annoying jutsu, but considering Minato can teleport...it's rendered absolutely useless. If caught, Minato simply tosses a Kunai in the air and warps away to land. If he can't toss a Kunai far enough to exit the swamp, which is highly unlikely, then he just double tosses while in the air, or summons (and marks in the process) a toad to jump off of. If Jiraiya starts off with this, then Minato evades it and spreads Kunai throughout the field. If Jiraiya doesn't start off with this, then Minato starts off by spreading a few Kunai, 5-10, around the field. Either by tossing them or via a clone.
Gama Rinsho-Depends on how long the battle lasts, but considering Minato is far faster than Jiraiya, and has Hiraishin and can sense chakra if need be, I think it's safe to say Jiraiya never gets it off, especially when his only way to hide would be inside that one frog due to the location being a plain desert.
Frog Call-Doesn't help since it stops movements, not thoughts, and a thought is all he needs if he wants to teleport away. Not to mention he'd be able to simply evade this regardless of having Hiraishin or not since the only way the tech works is if the sound waves actually hit you.
Goemon, and all of Jiraiya's offensive Katon-Easily evaded via Hiraishin except maybe Toad Oil Flame Bomb due to it's AoE, if there is no marking outside of his AoE, then Minato simply sucks it in with Space Time Barrier.
Chou Oodama Rasengan-Evaded with ease. Jiraiya getting this close would be suicide anyway.
Gamabunta is stalled by Gamahiro if he is summoned. If Jiraiya and Bunta fight in tandem, (which is far more likely) then Minato simply uses S/T Barrier to redirect all of Bunta's projectile attacks, and teleports Hiro around to let him easily get Bunta before he can properly react.
Things like Needle Jizo or Ma/Pa's offensive techniques are easily evaded.
How Minato ends Jiraiya
None of Jiraiya's attacks that he can perform on his own are going to help here due to the lack of AoE and speed, two things he needs if he wants to catch Minato. Attempting to limit his teleportation range won't help either since Minato doesn't need to leave Kunai on the ground to teleport, he can always make a clone or two. His attacks with large AoE are straightforward, thus S/T Barrier would easily suck them in. That leaves Jiraiya with zero chance of hitting Minato. On the other hand, Jiraiya has no chance of outrunning or escaping Minato's assault when he can't react to Hiraishin. Minato either tosses several Kunai at and near Jiraiya's location (20m distance) in an attempt to try and quickly end it with a blitz, or he just closes the distance between them on foot, countering his moves as described above, and then starts flicking his Kunai around, allowing him to end Jiraiya.