im currently working on a casual list for a land storm deck, im playtesting and i started the combo using Sylvan Awakening giving the lands haste indestructible and reach. Later on to get a higher storm count if i play Natural Affinity or Rude Awakening will that strip away the haste indestructible and reach from the initial animate spell or am i just overthinking cards as i usual am?
The lands will retain their abilities (including those they gained with Sylvan Awakening). In general, an effect that says certain permanents "become ... creatures" or "become ... creatures with [certain abilities]" doesn't remove abilities from those permanents unless the effect states otherwise (compare the three cards you mention with Titania's Song and Darksteel Mutation; see also C.R. 205.1b). See also this thread and this thread.
BWTeysa, Orzhov Scion Combo
GUEzuri, Claw of progress Morph
GUBSidisi, Brood tyrant
RWGisela, Blade of Goldnight Random red white cards i dont use.dec
GBLoam Pox
Modern
UBFaeries
GBWGoyfless Abzan
On Squirrels
On Risen Executioner