Hey guys, I thought, that it might be useful for some people to have a list of the riddle solutions, if they want to do different routes with different riddles, but don't necessarily know how to find the solutions for the riddles, which are different in the Japanese Friendly Version. So, here you have it.
Best of luck,
Geshode
Story Puzzles:
001: Top left city
002: Click 1
003: Click A
004: Centre house (with blue roof)
005: Enter 34
006: (A) Put 3 and 3, go to (B) (B) If even, go to (C) (B) If tilt, go to (D) (C) Split 2 left, go to (E) (D) Split 2 of 3 and drop third, take bot 2 to high, drop 1 from low, go to (E) (E) If even, dropped is answer (E) If tilt, high is answer
007: 2W; 1W; 2W; 1W; 2C; 1W1C; 2C; 1W; 2W; 1W; 2W
008: Enter 50
009:
010: mark 知 (top right)
011: Enter 10
012:
013: Enter 13
014: Click E
015: Enter 3
016: Enter 7
017: Mark ジェリア
018:
019:
020:
021: Enter 8
022:
023: 8 -> 5 ; 5 ->3 ; 3 ->8 ; 5 ->3 ; 8 ->5 ; 5 ->3 ; 3 -> 8
024: 10 -> 7 ; 7 -> 3 ; 3 -> 10 ; 7 -> 3 ; 3 -> 10 ; 7 -> 3 ; 10 -> 7 ; 7 -> 3 ; 3 ->10
025:
026: Enter 59
027:
028:
029: Enter 1
030: Mark house (bottom left)
031: Enter 1
032: Enter 100
033: Mark the match
034: Enter 12
035: Enter 3
036: Enter 1
037: Enter 6:6
038: Mark Beverages (Top)
039: Mark hat (top right)
040: Enter 44
041: Click D
042: Enter 95
043: Enter 0
044:
045: Enter コンパス
046:
047: Mark B
048: Enter 5
049: Enter M
050: Enter F
051: Click A
052:
053: Click C
054: Click the moon
055: Enter 1
056: Enter 2
057: Click D
058:
059:
060: Click ひだり
061:
062: Mark シゲオ (left name)
063: Move the hands on both eyes of the woman
064: Enter 1
065: Enter ヒト
066: 1 and 2
067: Enter だいすき
068: Enter 12
069: Enter 29
070:
071: Click C
072: Enter 4
073: Enter 11
074: Click A (the box below the letter)
075: Enter 4
076: Enter 20
077: Click B
078: 16 -> 9 ; 9 -> 7 ; 7 -> 16 ; 9 -> 7 ; 16 -> 9 ; 9 -> 7 ; 7 -> 16 ; 9 -> 7 ; 16 -> 9 ; 9 -> 7 ; 7 -> 16 ; 9-> 7 ; 16 -> 9 ; 9 -> 7 ; 7 -> 16
079:
080:
081:
082:
083:
084: Enter 3
085: Enter 60
086: Enter 4
087: Enter 42
088: Enter みず
089:
090:
091: Click B
092:
093: S, N, W, S, C, N, S
094:
095:
096: Enter 64
097:
http://layton-fushigi.g-takumi.com/images/nazo/097-3jpg 
098: ♦ J ♥ ♣ ♠
099: 41286-7953
100:
101: Enter 6
102: Enter 20
103:
104:
105: Enter 6
106: Enter 1
107: Mark right village (red roofs)
108: Enter み
109:
110:
111: Mark D
112:
113:
114
115: Mark D
116: Enter 51
117: Enter 1
118: Enter 1000
119:
120:
The Inventor's House:
121: Enter 8
122: Click C
123: Enter 17
The Decorator's House:
124: Enter 1
125: Enter さぶろう
126:
The Art Lover's House
127: Enter 26
128:
129:
The Golden Apple's House:
130:
131: Follow link and do as it says there (choose the case, which fits to your RNG) http://layton-fushigi.g-takumi.com/web/nazo131.php?expires=1486684085&answer=1
132:
The Puzzle Master's House:
133: (3－7÷4)×8
134:
135:
