Minor disclaimer: I haven't played eve for a few months, so some of this advice may be out of date.
The most profit from missions in Eve generally comes from the salvage. You should look to create a cheap salvage boat out of either a Thrasher or a Cormorant (4x Tractor Beams, 4x Salvager 1s) and bookmark one of your wrecks (in each "room") after each mission, before returning to clean it up. You can also pick up any modules and sell those.
Salvage such as Alloyed Titanium Bars or Armour Plates can sell for between 100k and 250k ISK each.
Modules such as the meta 4 target painter Phased Weapon Navigation Array Generation Extron can reach incredible prices in some areas (over 1m ISK per item in Dresi, I believe).
EDIT: As mentioned by @SteveV, this only applies to lower-level missions, such as the Level 2 missions the OP was interested in. In higher-end missions, you'd replace the Thrasher / Cormorant with a Noctis (probably a dedicated member of your team, or someone hired to salvage for you).
Additionally, if you're running faction missions, you can turn some profit in buying loyalty benefits with the LP you gain and selling them - Although in my experience these don't make much unless you're in Faction Warfare, because missions give such small LP rewards.