I am currently putting a engine i bought from a junk yard to replace the one that fail would i need to do any piston alignment on the engine 2000 dodge neon

SOURCE: 97 dodge neon timing belt broke while going down

I do not have good news for you.
According to the Gates Timing Belt guide 2002 Edition, both engines offered in the Dodge Neon are interference engines.
This means that your engine has likely sustained sgnificant valve, cylinder head or even piston damage. Have you tested the compression?
It is probably least expensive to buy a used engine, change its timing belt and replace your engine with that one.

SOURCE: I need a diagram on how to replace rear brake pad

get a haneys repair manual. at the auto parts. the book has what your looken for

SOURCE: 2000 dodge neon high idle

you might need a new idle air control module, dont adjust your idle

SOURCE: how to replace a engine mount on dodge neon 05

There are 4 motor mounts on a Neon. You need a jack to support the bottom of the motor with a block of wood on it. 2 are easily replaceable, but there is one that goes to the middle of the front of the engine that is tricky, plus the transmission mount is accessed after removing several components, like the battery and tray. It may be better to have a professional take care of those "tricky" mounts.

SOURCE: dodge neon sxt 2003 engine vibration while increasing rpm

Well i have s similar sound but im not sure if its the same. For me i just found out that its a bracket i never put back on. The motor mounts if you get them at an autozone which gives you a life time warrenty runs about 30 bucks and theres only 3 upper passenger and lower passenger and one on the drive side which is connected to the transmission. there is some what of a 4th one but that one never really goes bad and its the worst one of them all. Its located in between the 2 on the passenger side you have to move the engine outa the way to get to it and take it out. Im not sure if autozone or any place sells that one but like i said its probably still ok. i have 170000 mile on my neon and the mounts still good and trust me my cars been through alot and i mean alot its flied over cannels anyway yea so thats what i know about the mounts im not sure why the noise though. I say check the motor mounts if any are ripped change the ripped ones all at once trust me. Oh and i didnt the change on the motor mounts myself so it was free there not hard to change the first 3 i mean maybe the transmission one too all you need is a jack underneath it to keep it leveled right.