I went to tvtome.com (http://tvtome.com/), and I looked up The Munsters. I searched from smallest production number to biggest production number. And here is the order in which the episodes were really filmed. :D

Season 1

1. Pike's Pique
2. Munster Masquerade
3. A Walk on the Mild Side
4. Low-Cal Munster
5. My Fair Munster
6. Autumn Croakus
7. Tin Can Man
8. Knock Wood, Here Comes Charlie
9. Rock-A-Bye Munster
10. Family Portrait
11. Herman the Great
12. The Midnight Ride of Herman Munster
13. The Sleeping Cutie
14. Grandpa Leaves Home
15. Dance With Me, Herman
16. Grandpa's Call of the Wild
17. Herman's Rival
18. All Star Munster
19. Bats of a Feather
20. Eddie's Nickname
21. Don't Bank on Herman
22. If a Martian Answers, Hang Up
23. Love Locked Out
24. Follow That Munster
25. Far Out Munsters
26. Movie Star Munster
27. Munsters on the Move
28. Come Back, Little Googie
29. Herman the Rookie
30. Country Club Munsters
31. Herman's Raise
32. Love Comes to Mockingbird Heights
33. Lily Munster- Girl Model
34. Munster the Magnificent
35. Mummy Munster
36. Herman's Happy Valley
37. Hot Rod Herman
38. Yes, Galen, There Is A Herman


Season 2

39. Herman, the Master Spy
40. Bronco Bustin' Munster
41. Operation Herman
42. Will Success Spoil Herman Munster?
43. Herman, Coach of the Year
44. Lily's Star Boarder
45. Herman Munster, Shutterbug
46. Herman, the Tire Kicker
47. Herman's Child Psychology
48. A Man for Marilyn
49. Happy 100th Anniversary
50. Herman's Driving Test
51. John Doe Munster
52. The Most Beautiful Ghoul in the World
53. Herman's Peace Offensive
54. Herman Picks a Winner
55. The Treasure of Mockingbird Heights
56. Underground Munster
57. Grandpa's Lost Wife
58. Just Another Pretty Face
59. Big Heap Herman
60. Cyrano de Munster
61. The Fregosi Emerald
62. Eddie's Brother
63. Zombo
64. Prehistoric Munster
65. The Musician
66. Herman's Sorority Caper
67. A House Divided
68. A Visit From Johann
69. Herman's Lawsuit
70. A Visit From the Teacher


As you can plainly see, very few episodes were actually played in order.

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And here is the order in which the episodes were aired from 1964-1966 on CBS.


Season 1

1. Munster Masquerade
2. My Fair Munster
3. A Walk on the Mild Side
4. Rock-A-Bye Munster
5. Pike's Pique
6. Low-Cal Munster
7. Tin Can Man
8. Herman the Great
9. Knock Wood, Here Comes Charlie
10. Autumn Croakus
11. The Midnight Ride of Herman Munster
12. The Sleeping Cutie
13. Family Portrait
14. Grandpa Leaves Home
15. Herman's Rival
16. Grandpa's Call of the Wild
17. All Star Munster
18. If a Martian Answers, Hang Up
19. Eddie's Nickname
20. Bats of a Feather
21. Don't Bank on Herman
22. Dance With Me, Herman
23. Follow That Munster
24. Love Locked Out
25. Come Back, Little Googie
26. Far Out Munsters
27. Munsters on the Move
28. Movie Star Munster
29. Herman the Rookie
30. Country Club Munsters
31. Love Comes to Mockingbird Heights
32. Mummy Munster
33. Lily Munster- Girl Model
34. Munster the Magnificent
35. Herman's Happy Valley
36. Hot Rod Herman
37. Herman's Raise
38. Yes, Galen, There Is A Herman

Season 2

39. Herman's Child Psychology
40. Herman, the Master Spy
41. Bronco Bustin' Munster
42. Herman Munster, Shutterbug
43. Herman, Coach of the Year
44. Happy 100th Anniversary
45. Operation Herman
46. Lily's Star Boarder
47. John Doe Munster
48. A Man For Marilyn
49. Herman's Driving Test
50. Will Success Spoil Herman Munster?
51. Underground Munster
52. The Treasure of Mockingbird Heights
53. Herman's Peace Offensive
54. Herman Picks a Winner
55. Just Another Pretty Face
56. Big Heap Herman
57. The Most Beautiful Ghoul in the World
58. Grandpa's Lost Wife
59. The Fregosi Emerald
60. Zombo
61. Cyrano de Munster
62. The Musician
63. Prehistoric Munster
64. A Visit From Johann
65. Eddie's Brother
66. Herman, the Tire-Kicker
67. A House Divided
68. Herman's Sorority Caper
69. Herman's Lawsuit
70. A Visit From the Teacher

My guess was right then, that Pike's Pique was filmed after the pilot.

Interesting! If you noticed, Lily wears a different necklace in "Pike's Pique", which was changed for filmed episode #2 "Munsters Masquerade". This is similar to the "Green Hornet" tv show in which the first filmed episode was not the first to air, thus the Green Hornet wears a different mask in that episode.