Invocations for when the wind blow
1) allaahumma ‘innee ‘as’aluka khayrahaa, wa ‘a’oothu bika min sharrihaa.
O Allah , I ask You for the good of it and seek refuge in You against its evil.
Abu Dawud 4/326, Ibn Majah 2/1228. See also Al-Albani, Sahih Ibn Mjjah 2/305
2) Allaahumma ‘innee ‘as’aluka khayrahaa, wa khayra maa feehaa, wa khayra maa ‘ursilat bihi wa a’oothu bika min sharrihaa, wa sharri maa feehaa, wa sharri maa ‘ursilat bihi.
O Allah, I ask You for the good of it, for the good of what it contains , and for the good of what is sent with it . I seek refuge in You from the evil of it , from the evil of what it contains, and from the evil that is sent with it.
Muslim 2/616, Al-Bukhari 4/76.
Invocation for when it thunders
Subhaanal-lathee yusabbihur-ra’du bihamdihi walmalaa’ikatu min kheefatihi.
Glory is to Him Whom thunder and angels glorify due to fear of Him.
Reference: Whenever Abdullah bin Zubair (RA) would hear thunder, he would abandon all conversation and say this supplication. See Al-Muwatta’ 2/992. It was graded authentic by Al-Albani as a statement of Abdullah bin Zubayr only.
Invocation for when it rains
Allaahumma sayyiban naafi’an
O Allah , (bring) beneficial rain clouds.
Reference: Al-Bukhari, cf. Al-Asqalani, Fathul-Bari 2/518
Supplication after it rains
Mutirnaa bifadhlillaahi wa rahmatihi.
It has rained by the bounty of Allah and His mercy