MC 1.12.1
Forge 14.22.1.2481
ModularMachinery 1.5

I was testing out the included machine recipes to get the hang of things and ran into some, oddities.

1, when testing the alloy smelter, with furnace recipes, the recipe would progress, but no items would be removed from the input slot, and nothing put in the output slot. After breaking the controller and replacing it, it now continuously loops processing nothing, even when not set to the alloy smelter structure. Creating a second alloy smelter nearby has the same results, and it will endlessly loop doing nothing, while consuming energy. They'll even start processing as soon as they're created, without waiting for input items.

2, if a process runs out of energy partway, it will restart from the beginning, instead of pausing to wait for more energy like most other mods do.

3, if an item output does not have space for ALL of the possible outputs of a process, it will silently sit there and do nothing without displaying why.

4, Not sure if this is on Immersive Engineering or not, but as it is the only battery I have- a creative capacitor next to an energy input will cause the energy input to rapidly switch between full and empty.

1. Odd. This doesn't happen to me. Not sure how this happens but i'll see to it.
2. intended - So you want to make stuff that requires endgame power with 1 coal gen? Sorry, no cheesing progression or tipping balance by waiting.
3. intended - having to space to put stuff makes a recipe invalid aswell of course.
4. Not sure.. These kinds of issues are not easy to resolve in many cases. i'll have a look but i can't say much more about it atm.

Related to number 4: Putting even a single cable between the creative capacitor and the input fixes the issue.

With a little more testing of #1, the Centrifuge seems to work fine, so it may have to do with the furnace handler somehow? Furnace recipes would process but not do anything, while Alloy Smelter recipes run and output correctly until they run out of an ingredient, then it would loop doing nothing as well- while still consuming energy.

Well, i can't for the life of me reproduce the 1st issue you mentioned. Be sure to supply enough power and stuffs so it actually can work. If that's connected to 4, maybe make sure you're indeed using a cable inbetween so the power connections don't get messed up as described. Other than that, i can't say much as i'm unable to reproduce or trace the issue in any way myself.

Issue Nr. 1 also now fixed by 2c0979a