OK Sorry for tripple posting but I guess all I got to do is double to local scale now, it just sucks cause I have to modify this in 20 or more scripts in several different aspects, well I guess this is how you learn 
I always try to keep in mind that there is no rush to finish my game but man I get such lovely headaches. Thanks for bearing with me. Hope this helps anyone in the future, even though I am a beginner.
using System;
using System.Collections;
using System.Collections.Generic;
using UnityEngine;
public class BottomEnemySpawnerFire : MonoBehaviour
{
[SerializeField] BottomEnemy[] EnemyPrefabArray = null;
public int specialNoteInt;
public int musicNoteCount;
//cached references
GameObject Timer2;
MyTimer2 myTimer2;
GameObject Timer;
MyTimer myTimer;
Camera camera;
//to change what enemy pos
int numEnemy;
Vector3 newPosition;
private void Start()
{
//cached reference compenent getting?
Timer2 = GameObject.Find("Timer2");
myTimer2 = Timer2.GetComponent<MyTimer2>();
Timer = GameObject.Find("Timer");
myTimer = Timer.GetComponent<MyTimer>();
specialNoteInt = 0;
musicNoteCount = 0;
numEnemy = 1;
camera = Camera.main;
}
//Music Notes Appear on These Seconds (Consider Using Audacity To Zoom into each second)
float[] MusicNoteArray = {
//0 second
0.05f, 0.25f, 0.35f, 0.45f, 0.65f, 0.75f, 0.85f, 1.05f, 1.15f, 1.25f, 1.45f, 1.55f, /*other notes*/ 35f, 35.5f,
46.15f, 46.8f, 47.2f, 47.6f,
//...
/*make sure you keep a very large number in*/ 1000f
};
/*incase you want to make certian notes larger or something*/
int[] specialNote =
{
//0,
/*make sure you keep a very large number in*/ 1000
};
private void SpawnEnemy(BottomEnemy myEnemy)
{
if (myTimer.timer > .25)
{
// Vector3 position = new Vector3(Random.Range(-10.0f, 10.0f), 0, Random.Range(-10.0f, 10.0f));
if (numEnemy == 1)
{
//newPosition = new Vector3(UnityEngine.Random.Range(-9.0f, 0), -5, 0);
newPosition = camera.ViewportToWorldPoint(new Vector3(UnityEngine.Random.Range(0f, 1),
UnityEngine.Random.Range(0, 1), -camera.transform.position.z));
numEnemy = 0;
}
else if (numEnemy == 0)
{
//newPosition = new Vector3(UnityEngine.Random.Range(0, 9.0f), -5, 0);
newPosition = camera.ViewportToWorldPoint(new Vector3(UnityEngine.Random.Range(0f, .5f),
UnityEngine.Random.Range(0, 1), -camera.transform.position.z));
numEnemy = 1;
}
BottomEnemy newEnemy =
Instantiate(myEnemy, newPosition, transform.rotation)
as BottomEnemy;
newEnemy.name = newEnemy.name + MusicNoteArray[musicNoteCount] + " #(" + musicNoteCount + ")";
//newEnemy.name = "Enemy" + musicNoteCount;
newEnemy.transform.parent = transform;
if (musicNoteCount == specialNote[specialNoteInt])
{
newEnemy.transform.localScale = new Vector3(4F, 4F, 0);
specialNoteInt++;
}
else
{
newEnemy.transform.localScale = new Vector3(2F, 2F, 0);
}
}
}
void SpawnNotesOnTime()
{
if (musicNoteCount < MusicNoteArray.Length) //do this stuff while
{
if (myTimer2.timer >= MusicNoteArray[musicNoteCount])//if the timer has gotten larger than the time to spawn
{
SpawnEnemy(EnemyPrefabArray[UnityEngine.Random.Range(0, EnemyPrefabArray.Length)]); ///spawn a random enemy from the array
musicNoteCount += 1;
return;
}
}
else
{
return;
}
}
private void Update()
{
SpawnNotesOnTime();
}
}
My final script for a basic spawn enemy with screentoworldpoint, man I wish there was better tutorials for what you needed when you need them lol
Still not sure why the apple is now spinning at 100x his previous rate or if its even related but I am sure I can figure that out.
Edit
Alright the Spinning out of control issue was resolved by restraining the z on the rigidbody for the mouse guy, I guess it’s unrelated to the issue I had but I just want to let you know I figured everything out, now I just need to go modify everything on 10 different scenes and 25+ scripts 
may god be with me.
