How to sort get components?

Its much more efficient to make an public Array of Transforms that you can fill with the waypoints in the editor.

If the waypoints not exist at scene startup you should use there names to identify them.

             Transform tmptransform;
             Transform []path = new Transform[20];
             for(int i = 0; i< path.Length;i++)
             {
             
                 tmptransform = GameObject.Find("WP" + i);
                 if(tmptransform != null)
                 {
                     path[i] = tmptransform;
                 }
             }

FindGameObjectsWithTag unfortunately does not guarantee order. You can however name your objects numerically and simply bubble sort the array returned by FindGameObjectsWithTag and then just use Path[i].name to sort by.

Look at How to bubble sort if you don't already know bubble sorting...

Alternatively you can try these two functions to sort (C#), but again, it's according to the game object's name..

 GameObject[] FindObsWithTag( string tag )
 {
   GameObject[] foundObs = GameObject.FindGameObjectsWithTag(tag);
   Array.Sort( foundObs, CompareObNames );
   return foundObs;
 }
  
 int CompareObNames( GameObject x, GameObject y )
 {
   return x.name.CompareTo( y.name );
 }

I should have post the entire script instead of just the parts I think is responsible as the above suggestions create more headache as how my entire script is structured.

using UnityEngine; using System.Collections;

public class Lv1BossAI : MonoBehaviour {

 public Transform pathway;
 public GameObject[] path;
 public float speed;
 public float rotate;
 public int currentPath; //When the trigger enter a path point it change this varible then pass it on to ToPoint. 
 public Transform emitPoint;
 public GameObject closeAtt;
 public GameObject farAtt;
 public GameObject deathReplace;
 
 private weakPointHealth wph;
 private Transform player;
 private Transform own;

 // Use this for initialization
 void Start () {
     GameObject p;
     own = transform;
     //Find all paths
     path = GameObject.FindGameObjectsWithTag("path");
     p = GameObject.FindGameObjectWithTag("Player");
     player = p.transform;
     
     InvokeRepeating("Far", 1, 30);
     InvokeRepeating("Close", 1, 6);
     
     
 }
 
 // Update is called once per frame
 void Update () {
     GameObject death;
     
     //If the script are not found kill the object.
     wph = GetComponentInChildren<weakPointHealth>();
     if (wph == null) {
         death = Instantiate(deathReplace, own.position, own.rotation) as GameObject;
         death.SetActive(true);
         Destroy(gameObject);
     }
     
     ToPoint(currentPath);
     
 }
 
 //Move to the next point
 void ToPoint (int pathArr){
     
     pathway = path[pathArr].transform;    
     
     own.rotation = Quaternion.Slerp(own.rotation, Quaternion.LookRotation(pathway.position - own.position), Time.time * rotate);
     own.position += own.forward * speed * Time.deltaTime;
     
 }
 
 void OnTriggerEnter (Collider collider) {
     
     if (collider.gameObject.tag == "path") {
       
         //Register the next point
         if (currentPath != 15) {
             currentPath++;
         }
         
         
         ToPoint(currentPath);
         
     }
 }
 
 //How far is from the player
 void Close() {
     GameObject cloneC;
     
     
     float Dist = Vector3.Distance(player.position, own.position);
     
     //when player is near
     if (Dist < 20) {
         cloneC = Instantiate(closeAtt, emitPoint.position, emitPoint.rotation) as GameObject;
         cloneC.SetActive(true);
     }
 }
 
 void Far() {
     GameObject cloneF;
     
     float Dist = Vector3.Distance(player.position, own.position);
     
     //when player is near
     if (Dist > 20) {
         cloneF = Instantiate(farAtt, emitPoint.position, emitPoint.rotation) as GameObject;
         cloneF.SetActive(true);
     }
 }
 
 
 

}